14990 lines
700 KiB
JSON
14990 lines
700 KiB
JSON
{
|
|
"extraArgs": {
|
|
"biocVersion": "3.19"
|
|
},
|
|
"packages": {
|
|
"ABSSeq": {
|
|
"name": "ABSSeq",
|
|
"version": "1.58.0",
|
|
"sha256": "0zqb2w055x4whgl3mljarsnps6lkz90fwlx2lnirbnrgmlnalwjz",
|
|
"depends": ["limma", "locfit"]
|
|
},
|
|
"ABarray": {
|
|
"name": "ABarray",
|
|
"version": "1.72.0",
|
|
"sha256": "1kfqq4df55pxl7gnwf24aaryxijym4gzqfjyif28arlbjci9hlv6",
|
|
"depends": ["Biobase", "multtest"]
|
|
},
|
|
"ACE": {
|
|
"name": "ACE",
|
|
"version": "1.22.0",
|
|
"sha256": "1gpn9z09cfcy2mj7m32xfb2bjjwl01g9qn9nqaivmqbi4k6icrr8",
|
|
"depends": ["Biobase", "GenomicRanges", "QDNAseq", "ggplot2"]
|
|
},
|
|
"ACME": {
|
|
"name": "ACME",
|
|
"version": "2.60.0",
|
|
"sha256": "0jak83dlavhczaa2nqk5g2l0h4grnc9v24bg6v9mjfn6bqhl1s7j",
|
|
"depends": ["Biobase", "BiocGenerics"]
|
|
},
|
|
"ADAM": {
|
|
"name": "ADAM",
|
|
"version": "1.20.0",
|
|
"sha256": "0z0rmpwfhd8p6c4zscviwsningsm740r3pb95cl8brasfdg1kl3v",
|
|
"depends": ["DT", "GO_db", "KEGGREST", "Rcpp", "SummarizedExperiment", "dplyr", "knitr", "pbapply", "stringr"]
|
|
},
|
|
"ADAMgui": {
|
|
"name": "ADAMgui",
|
|
"version": "1.20.0",
|
|
"sha256": "08kxkb6hgbw7l9dv1wn3jfdkc0sizqdgmjkrzpq73q7rf0p4248g",
|
|
"depends": ["ADAM", "DT", "GO_db", "RColorBrewer", "colorRamps", "data_table", "dplyr", "ggplot2", "ggpubr", "ggrepel", "ggsignif", "gridExtra", "knitr", "reshape2", "shiny", "shinyjs", "stringi", "stringr", "testthat", "varhandle"]
|
|
},
|
|
"ADImpute": {
|
|
"name": "ADImpute",
|
|
"version": "1.14.0",
|
|
"sha256": "0kihg0mwm2ysgnx3jg6xln7ibvgmky0x2hjbcmdqlg65znczh4b6",
|
|
"depends": ["BiocParallel", "DrImpute", "MASS", "Matrix", "S4Vectors", "SAVER", "SingleCellExperiment", "SummarizedExperiment", "checkmate", "data_table", "kernlab", "rsvd"]
|
|
},
|
|
"ADaCGH2": {
|
|
"name": "ADaCGH2",
|
|
"version": "2.44.0",
|
|
"sha256": "1j9dn0xw8mdfvi2ccm1d5j9q740wb89wqi6715n6jy3dljlc8irz",
|
|
"depends": ["DNAcopy", "GLAD", "aCGH", "bit", "cluster", "ff", "tilingArray", "waveslim"]
|
|
},
|
|
"AGDEX": {
|
|
"name": "AGDEX",
|
|
"version": "1.52.0",
|
|
"sha256": "088r2ahqjv61wnzp7by4c5v9aivahmyfkzr7prnkk3ff8zh6pznl",
|
|
"depends": ["Biobase", "GSEABase"]
|
|
},
|
|
"AHMassBank": {
|
|
"name": "AHMassBank",
|
|
"version": "1.4.0",
|
|
"sha256": "1inlsknrkb5am3aqfp3mk1fd0aaj89wfiq1549k7dqy71ng7rpf9",
|
|
"depends": ["AnnotationHubData"]
|
|
},
|
|
"AIMS": {
|
|
"name": "AIMS",
|
|
"version": "1.36.0",
|
|
"sha256": "0ljdv1gww01yi0h9j9br8kp67k5wizr1dy0091kngjcbn0dxzmla",
|
|
"depends": ["Biobase", "e1071"]
|
|
},
|
|
"ALDEx2": {
|
|
"name": "ALDEx2",
|
|
"version": "1.36.0",
|
|
"sha256": "1bqpk93bbyajw2dm54d68f3dkc0jgcny109asfm6kcz7dg7szi3y",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "Rfast", "S4Vectors", "SummarizedExperiment", "directlabels", "lattice", "latticeExtra", "multtest", "zCompositions"]
|
|
},
|
|
"AMARETTO": {
|
|
"name": "AMARETTO",
|
|
"version": "1.20.0",
|
|
"sha256": "0n3w00x1qajkg43ip3l63k2qs0d1x2zv8wv4xj0iqwl6r6cqgxnf",
|
|
"depends": ["BiocFileCache", "ComplexHeatmap", "DT", "Matrix", "MultiAssayExperiment", "Rcpp", "callr", "circlize", "curatedTCGAData", "doParallel", "dplyr", "foreach", "ggplot2", "glmnet", "gridExtra", "httr", "impute", "knitr", "limma", "matrixStats", "readr", "reshape2", "rmarkdown", "tibble"]
|
|
},
|
|
"AMOUNTAIN": {
|
|
"name": "AMOUNTAIN",
|
|
"version": "1.30.0",
|
|
"sha256": "1y2k1vg31siic6j98700m54sswbj6wr4dvbw2mz3hlm0nmsmpxc1",
|
|
"depends": []
|
|
},
|
|
"ANCOMBC": {
|
|
"name": "ANCOMBC",
|
|
"version": "2.6.0",
|
|
"sha256": "14jdfcv3hghl1z2f7zj2mdqdyblz5sn4l1iwh8bhvih86cpigb58",
|
|
"depends": ["CVXR", "DescTools", "Hmisc", "MASS", "Matrix", "Rdpack", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TreeSummarizedExperiment", "doParallel", "doRNG", "energy", "foreach", "gtools", "lme4", "lmerTest", "mia", "multcomp", "nloptr"]
|
|
},
|
|
"ANF": {
|
|
"name": "ANF",
|
|
"version": "1.26.0",
|
|
"sha256": "00s2rlkh5snqmvlz5a21ilmm0ngh4g362y7iayr6f78nh8gwp617",
|
|
"depends": ["Biobase", "MASS", "RColorBrewer", "igraph", "survival"]
|
|
},
|
|
"APAlyzer": {
|
|
"name": "APAlyzer",
|
|
"version": "1.18.0",
|
|
"sha256": "102zs1rlz58dzvrgidf7cvq4wcmk6sffc9fv4b0xlqk5d6il32w4",
|
|
"depends": ["DESeq2", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "HybridMTest", "Rsamtools", "Rsubread", "SummarizedExperiment", "VariantAnnotation", "dplyr", "ggplot2", "ggrepel", "repmis", "rtracklayer", "tidyr"]
|
|
},
|
|
"APL": {
|
|
"name": "APL",
|
|
"version": "1.8.0",
|
|
"sha256": "1mkm9aad0qamqs7595mqcbz37qz4ykn0y24wsl3ngj6ifyfxf643",
|
|
"depends": ["Matrix", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "ggrepel", "magrittr", "org_Hs_eg_db", "org_Mm_eg_db", "plotly", "reticulate", "rlang", "topGO", "viridisLite"]
|
|
},
|
|
"ARRmNormalization": {
|
|
"name": "ARRmNormalization",
|
|
"version": "1.44.0",
|
|
"sha256": "0wg799c5pzw9g0dbkaa5j4jyccvixqbc8x3xnwk3cgi1dsbhpk34",
|
|
"depends": ["ARRmData"]
|
|
},
|
|
"ASAFE": {
|
|
"name": "ASAFE",
|
|
"version": "1.30.0",
|
|
"sha256": "13qf4jvf0m6i46bwqxdhd4zllac370ckwnd9xh6p56r1lrgcl4sa",
|
|
"depends": []
|
|
},
|
|
"ASEB": {
|
|
"name": "ASEB",
|
|
"version": "1.48.0",
|
|
"sha256": "1h5rgy2n7rxd72ypzwnfclw8h5hvdnac48fgbfll669z2k97dsmm",
|
|
"depends": []
|
|
},
|
|
"ASGSCA": {
|
|
"name": "ASGSCA",
|
|
"version": "1.38.0",
|
|
"sha256": "0gvpb1pspm7zlllg77fbi3g6csa3cpp2lbljna2m0xfi0c5zdqvw",
|
|
"depends": ["MASS", "Matrix"]
|
|
},
|
|
"ASICS": {
|
|
"name": "ASICS",
|
|
"version": "2.20.1",
|
|
"sha256": "0halznbl3bflnn38rh9h5a5f0dsc88n6x6kwdffbpnin9i192q1k",
|
|
"depends": ["BiocParallel", "Matrix", "PepsNMR", "SummarizedExperiment", "ggplot2", "glmnet", "gridExtra", "mvtnorm", "plyr", "quadprog", "ropls", "zoo"]
|
|
},
|
|
"ASSET": {
|
|
"name": "ASSET",
|
|
"version": "2.22.0",
|
|
"sha256": "1wqsnp7w3ml7azrx72fafcfbmjg4324jaxcijpcrlrrccxl5rwp4",
|
|
"depends": ["MASS", "msm", "rmeta"]
|
|
},
|
|
"ASSIGN": {
|
|
"name": "ASSIGN",
|
|
"version": "1.40.0",
|
|
"sha256": "1aq302awy940jrc1hnsf0rn05y4fg5m9aljsl1mclxxig6b8mrd2",
|
|
"depends": ["Rlab", "ggplot2", "gplots", "msm", "sva", "yaml"]
|
|
},
|
|
"ASURAT": {
|
|
"name": "ASURAT",
|
|
"version": "1.8.0",
|
|
"sha256": "1fjzmvc4if1kqhwzhd38l5ryvk2qg3001jwapbnkfagxkhmnwymg",
|
|
"depends": ["ComplexHeatmap", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circlize", "cluster", "plot3D"]
|
|
},
|
|
"ASpli": {
|
|
"name": "ASpli",
|
|
"version": "2.14.0",
|
|
"sha256": "1br4apbc3zn06ilg8fjb8xcxaimz4h7rnx9i60ak4wnpvgzgbyh2",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocStyle", "DT", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "MASS", "Rsamtools", "S4Vectors", "UpSetR", "data_table", "edgeR", "htmltools", "igraph", "limma", "pbmcapply", "tidyr", "txdbmaker"]
|
|
},
|
|
"ATACCoGAPS": {
|
|
"name": "ATACCoGAPS",
|
|
"version": "1.6.0",
|
|
"sha256": "09h32q9y7z65ck33rwqzw2wkl8l6016s0sdkhf2g094yxhkz26rh",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Mmusculus_UCSC_mm10", "CoGAPS", "GeneOverlap", "GenomicFeatures", "GenomicRanges", "Homo_sapiens", "IRanges", "JASPAR2016", "Mus_musculus", "TFBSTools", "chromVAR", "dplyr", "fgsea", "gplots", "gtools", "motifmatchr", "msigdbr", "projectR", "rGREAT", "stringr", "tidyverse"]
|
|
},
|
|
"ATACseqQC": {
|
|
"name": "ATACseqQC",
|
|
"version": "1.28.0",
|
|
"sha256": "0licdpzhh6xlma0hnvs4rr4bjr5q4q3g18kipf0is47zj4l91smy",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "ChIPpeakAnno", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "GenomicScores", "IRanges", "KernSmooth", "Rsamtools", "S4Vectors", "edgeR", "limma", "motifStack", "preseqR", "randomForest", "rtracklayer"]
|
|
},
|
|
"ATACseqTFEA": {
|
|
"name": "ATACseqTFEA",
|
|
"version": "1.6.0",
|
|
"sha256": "1dfw6vb0fx02xx21msvy8iarwmn41p1l3ryx1zs39668bz6zz06j",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Matrix", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TFBSTools", "dplyr", "ggplot2", "ggrepel", "limma", "motifmatchr", "pracma", "rtracklayer"]
|
|
},
|
|
"AUCell": {
|
|
"name": "AUCell",
|
|
"version": "1.26.0",
|
|
"sha256": "009ha82393giapvmfw2mi8pmi88f61mr69qj64y5vphcr1smvcl0",
|
|
"depends": ["BiocGenerics", "DelayedArray", "DelayedMatrixStats", "GSEABase", "Matrix", "R_utils", "SummarizedExperiment", "data_table", "mixtools"]
|
|
},
|
|
"AWFisher": {
|
|
"name": "AWFisher",
|
|
"version": "1.18.0",
|
|
"sha256": "0z5qs337zqqri2g3m69m85xg4x5sxnqlkbwz83vhnqfzmy9nqym0",
|
|
"depends": ["edgeR", "limma"]
|
|
},
|
|
"AffiXcan": {
|
|
"name": "AffiXcan",
|
|
"version": "1.22.0",
|
|
"sha256": "1241vpqkv4p3yarr6fsz1a7awvc4ff7q75ia3ra7vgkvg7gx9p93",
|
|
"depends": ["BiocParallel", "MultiAssayExperiment", "SummarizedExperiment", "crayon"]
|
|
},
|
|
"AffyRNADegradation": {
|
|
"name": "AffyRNADegradation",
|
|
"version": "1.50.0",
|
|
"sha256": "19lcs76jsdy5dz57rkdb8qqankpasrw2r5z4cy98q94az6582ix4",
|
|
"depends": ["affy"]
|
|
},
|
|
"AgiMicroRna": {
|
|
"name": "AgiMicroRna",
|
|
"version": "2.54.0",
|
|
"sha256": "1bm8rxfdgd0fx48fi70by08qr855jv6r4xcr7al2v9akv6vphws2",
|
|
"depends": ["Biobase", "affy", "affycoretools", "limma", "preprocessCore"]
|
|
},
|
|
"AllelicImbalance": {
|
|
"name": "AllelicImbalance",
|
|
"version": "1.42.0",
|
|
"sha256": "0mbmw450gdlr46ggvhrgimkbir3lg5dnqsfadn7yyrn7wkcr302f",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "gridExtra", "lattice", "latticeExtra", "nlme", "seqinr"]
|
|
},
|
|
"AlphaBeta": {
|
|
"name": "AlphaBeta",
|
|
"version": "1.18.0",
|
|
"sha256": "192jyfw2676x8pgcp9h4d78283p7n6gnsdw7wzphfjn12v266fb5",
|
|
"depends": ["BiocParallel", "data_table", "dplyr", "expm", "ggplot2", "gtools", "igraph", "optimx", "plotly", "stringr"]
|
|
},
|
|
"AlphaMissenseR": {
|
|
"name": "AlphaMissenseR",
|
|
"version": "1.0.2",
|
|
"sha256": "1y8dzcrjqmqagnl4jiwcsfkj28n544j2d6li0ga6rrqmjwrnxzv0",
|
|
"depends": ["BiocBaseUtils", "BiocFileCache", "DBI", "curl", "dplyr", "duckdb", "memoise", "rjsoncons", "rlang", "spdl", "whisker"]
|
|
},
|
|
"AlpsNMR": {
|
|
"name": "AlpsNMR",
|
|
"version": "4.6.0",
|
|
"sha256": "1c8ynw9424ygc4wj4drbm9gdkdqwgb5z7p72zk3x5zh3zqai0d1d",
|
|
"depends": ["BiocParallel", "baseline", "cli", "dplyr", "fs", "future", "generics", "ggplot2", "glue", "htmltools", "magrittr", "matrixStats", "mixOmics", "pcaPP", "purrr", "readxl", "reshape2", "rlang", "rmarkdown", "scales", "signal", "speaq", "stringr", "tibble", "tidyr", "tidyselect", "vctrs"]
|
|
},
|
|
"AnVIL": {
|
|
"name": "AnVIL",
|
|
"version": "1.16.1",
|
|
"sha256": "0i4skg2bpj0rbb3fbaprfs4d4nxg9aj8d6pni4a3k0wip3dw1cf9",
|
|
"depends": ["BiocBaseUtils", "BiocManager", "DT", "dplyr", "futile_logger", "htmltools", "httr", "jsonlite", "miniUI", "rapiclient", "rlang", "shiny", "tibble", "tidyr", "tidyselect", "yaml"]
|
|
},
|
|
"AnVILBilling": {
|
|
"name": "AnVILBilling",
|
|
"version": "1.14.0",
|
|
"sha256": "0z05zp70l7r1wxf1s825gsgaj6kzj4fgw3962gp0z90whz398jyf",
|
|
"depends": ["DBI", "DT", "bigrquery", "dplyr", "ggplot2", "lubridate", "magrittr", "plotly", "shiny", "shinytoastr"]
|
|
},
|
|
"AnVILPublish": {
|
|
"name": "AnVILPublish",
|
|
"version": "1.14.0",
|
|
"sha256": "030bm9hxqzgfp94h64wfizcbp4q8b9h2irk4zv679v0wnbspp3zz",
|
|
"depends": ["AnVIL", "BiocBaseUtils", "BiocManager", "httr", "jsonlite", "readr", "rmarkdown", "whisker", "yaml"]
|
|
},
|
|
"AnVILWorkflow": {
|
|
"name": "AnVILWorkflow",
|
|
"version": "1.4.0",
|
|
"sha256": "0qk20pg45z2fk7c3ickyzpv99w48pa3r2lfp1aqvh2blbdvp6z88",
|
|
"depends": ["AnVIL", "dplyr", "httr", "jsonlite", "tibble"]
|
|
},
|
|
"Anaquin": {
|
|
"name": "Anaquin",
|
|
"version": "2.28.0",
|
|
"sha256": "0hfvwzkfy6bm2ffghax5b228k2l6wf8zq82q13h6bxfps4wz0jgb",
|
|
"depends": ["DESeq2", "ROCR", "ggplot2", "knitr", "locfit", "plyr", "qvalue"]
|
|
},
|
|
"AneuFinder": {
|
|
"name": "AneuFinder",
|
|
"version": "1.32.0",
|
|
"sha256": "0dgmg0slyrh025wgz299dzzmpirlmdhmabxspci1qfarakw5yicf",
|
|
"depends": ["AneuFinderData", "BiocGenerics", "Biostrings", "DNAcopy", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "bamsignals", "cowplot", "doParallel", "ecp", "foreach", "ggdendro", "ggplot2", "ggrepel", "mclust", "reshape2"]
|
|
},
|
|
"AnnotationDbi": {
|
|
"name": "AnnotationDbi",
|
|
"version": "1.66.0",
|
|
"sha256": "1g2yzbx7djkk8kccbclxv953iijmjvsjsalfv1ihmmcai33979rs",
|
|
"depends": ["Biobase", "BiocGenerics", "DBI", "IRanges", "KEGGREST", "RSQLite", "S4Vectors"]
|
|
},
|
|
"AnnotationFilter": {
|
|
"name": "AnnotationFilter",
|
|
"version": "1.28.0",
|
|
"sha256": "1sdm85sl4d9mqbjgjh3yizcmrzgz0g4x17s25gss2f6cjwy5jp40",
|
|
"depends": ["GenomicRanges", "lazyeval"]
|
|
},
|
|
"AnnotationForge": {
|
|
"name": "AnnotationForge",
|
|
"version": "1.46.0",
|
|
"sha256": "1ikri9hb1s0jzw1wyfpwsl02hg8dw2xs703sp085sbsq3cwk9cn1",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "RCurl", "RSQLite", "S4Vectors", "XML"]
|
|
},
|
|
"AnnotationHub": {
|
|
"name": "AnnotationHub",
|
|
"version": "3.12.0",
|
|
"sha256": "1da2n13j2xysnd175zi7s6zm8yllnp0k59vygkx9id85jcldqf51",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "BiocGenerics", "BiocManager", "BiocVersion", "RSQLite", "S4Vectors", "curl", "dplyr", "httr", "rappdirs", "yaml"]
|
|
},
|
|
"AnnotationHubData": {
|
|
"name": "AnnotationHubData",
|
|
"version": "1.34.0",
|
|
"sha256": "0wcbghjvgr8sx1qg9kyjxb7znkxhihy7jvzycrv4pyq746154xbi",
|
|
"depends": ["AnnotationDbi", "AnnotationForge", "AnnotationHub", "Biobase", "BiocCheck", "BiocGenerics", "BiocManager", "Biostrings", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "OrganismDbi", "RCurl", "RSQLite", "Rsamtools", "S4Vectors", "XML", "biocViews", "futile_logger", "graph", "jsonlite", "rtracklayer"]
|
|
},
|
|
"ArrayExpress": {
|
|
"name": "ArrayExpress",
|
|
"version": "1.64.0",
|
|
"sha256": "1ad6h0pi04r9m3nwxrn7sha837m95kwii8z6s7j4zbka9ijy2pr4",
|
|
"depends": ["Biobase", "httr", "jsonlite", "limma", "oligo", "rlang"]
|
|
},
|
|
"AssessORF": {
|
|
"name": "AssessORF",
|
|
"version": "1.22.0",
|
|
"sha256": "1gzaafsfqzy2x35i251gvkd1syif80qb08kkvgnf1i6c8d2czmps",
|
|
"depends": ["Biostrings", "DECIPHER", "GenomicRanges", "IRanges"]
|
|
},
|
|
"BADER": {
|
|
"name": "BADER",
|
|
"version": "1.42.0",
|
|
"sha256": "15lsvfmp4qsrv12bcrz5q8yz8xyg9rckrcflr3k6si03z2vw812p",
|
|
"depends": []
|
|
},
|
|
"BAGS": {
|
|
"name": "BAGS",
|
|
"version": "2.44.0",
|
|
"sha256": "1xc7gp5fljqz26lj8sjcilm01g636p4wlzy4pzy5wgqxgfcw3zps",
|
|
"depends": ["Biobase", "breastCancerVDX"]
|
|
},
|
|
"BANDITS": {
|
|
"name": "BANDITS",
|
|
"version": "1.20.0",
|
|
"sha256": "1iizs0bvs7rbkwv3vs6xk26jy222kql80fp6cki0qs9h9igpzk5h",
|
|
"depends": ["BiocParallel", "DRIMSeq", "MASS", "R_utils", "Rcpp", "RcppArmadillo", "data_table", "doParallel", "doRNG", "foreach", "ggplot2"]
|
|
},
|
|
"BASiCS": {
|
|
"name": "BASiCS",
|
|
"version": "2.16.0",
|
|
"sha256": "0rcc8na0nravf2687bcvbaklwa0z8b43lvdy0nf9xvfrfpr1zjnw",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "MASS", "Matrix", "Rcpp", "RcppArmadillo", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "assertthat", "coda", "cowplot", "ggExtra", "ggplot2", "hexbin", "matrixStats", "posterior", "reshape2", "scran", "scuttle", "viridis"]
|
|
},
|
|
"BASiCStan": {
|
|
"name": "BASiCStan",
|
|
"version": "1.6.0",
|
|
"sha256": "1q6lhmdy19v30aq9hzphxicq6blyzr6z94wcqsqzwb0xjij1z5f9",
|
|
"depends": ["BASiCS", "BH", "Rcpp", "RcppEigen", "RcppParallel", "SingleCellExperiment", "StanHeaders", "SummarizedExperiment", "glmGamPoi", "rstan", "rstantools", "scran", "scuttle"]
|
|
},
|
|
"BBCAnalyzer": {
|
|
"name": "BBCAnalyzer",
|
|
"version": "1.34.0",
|
|
"sha256": "16zm6fix5f5277dkdaxyxl1q1n52960ma3vw8001a5bjxhic58rn",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Rsamtools", "SummarizedExperiment", "VariantAnnotation"]
|
|
},
|
|
"BCRANK": {
|
|
"name": "BCRANK",
|
|
"version": "1.66.0",
|
|
"sha256": "0ydajrbggvqakdf01pq5mqi1v3slz00irpbx4s9fmxvci9ganwp7",
|
|
"depends": ["Biostrings"]
|
|
},
|
|
"BEARscc": {
|
|
"name": "BEARscc",
|
|
"version": "1.24.0",
|
|
"sha256": "0f66pbhf4fz66021k7f6rlwzxdikznbhjqqpxwrj07yg65q5sd1l",
|
|
"depends": ["SingleCellExperiment", "data_table", "ggplot2"]
|
|
},
|
|
"BEAT": {
|
|
"name": "BEAT",
|
|
"version": "1.42.0",
|
|
"sha256": "0s63nwf21ai1gys0dzjsjqy64sal7dpp040f0jqskyf2y6gdf9v9",
|
|
"depends": ["BSgenome", "Biostrings", "GenomicRanges", "ShortRead"]
|
|
},
|
|
"BERT": {
|
|
"name": "BERT",
|
|
"version": "1.0.0",
|
|
"sha256": "1n2v8sdvh40sqz8gpzszwhp2w6npxnl48bsp9l0bzz8w148cwyk8",
|
|
"depends": ["BiocParallel", "SummarizedExperiment", "cluster", "comprehenr", "foreach", "invgamma", "iterators", "janitor", "limma", "logging", "sva"]
|
|
},
|
|
"BEclear": {
|
|
"name": "BEclear",
|
|
"version": "2.20.0",
|
|
"sha256": "17i93h0q1fwl8wymmlgjsh8hbnaws6baf4jid5k579aap32zb5ha",
|
|
"depends": ["BiocParallel", "Matrix", "Rcpp", "Rdpack", "abind", "data_table", "dixonTest", "futile_logger", "ids"]
|
|
},
|
|
"BG2": {
|
|
"name": "BG2",
|
|
"version": "1.4.0",
|
|
"sha256": "0nby9b7kha4bz2x7a8b9nk78qai98m76csndnaikcpg79mpzygv5",
|
|
"depends": ["GA", "MASS", "Matrix", "caret", "memoise"]
|
|
},
|
|
"BHC": {
|
|
"name": "BHC",
|
|
"version": "1.56.0",
|
|
"sha256": "1fam1k42dwd0gh7dw2gz4yl6bnbkfrw0bd44v8sdpvwwyd1dq1r8",
|
|
"depends": []
|
|
},
|
|
"BLMA": {
|
|
"name": "BLMA",
|
|
"version": "1.28.0",
|
|
"sha256": "1b6hcjy6dv55cpprm8ylz7akl4vyvi6lky0qc31q6skxxdp3266k",
|
|
"depends": ["Biobase", "GSA", "PADOG", "ROntoTools", "graph", "limma", "metafor"]
|
|
},
|
|
"BOBaFIT": {
|
|
"name": "BOBaFIT",
|
|
"version": "1.8.0",
|
|
"sha256": "18xzy91rblcdc4x8c4cxi5b03cskdwjpryzajhzycdpdb4hfg89q",
|
|
"depends": ["GenomicRanges", "NbClust", "dplyr", "ggbio", "ggforce", "ggplot2", "magrittr", "plyranges", "stringr", "tidyr"]
|
|
},
|
|
"BPRMeth": {
|
|
"name": "BPRMeth",
|
|
"version": "1.30.0",
|
|
"sha256": "0ax88n7i72lhlrrq4zc6ay5mg9ds37qlg10xafgkilgliz309ykn",
|
|
"depends": ["BiocStyle", "GenomicRanges", "IRanges", "MASS", "Rcpp", "RcppArmadillo", "S4Vectors", "assertthat", "cowplot", "data_table", "doParallel", "e1071", "earth", "foreach", "ggplot2", "kernlab", "magrittr", "matrixcalc", "mvtnorm", "randomForest", "truncnorm"]
|
|
},
|
|
"BRAIN": {
|
|
"name": "BRAIN",
|
|
"version": "1.50.0",
|
|
"sha256": "0l712ilc308amafhbl9g6g6jvn1px0x0wlc53y2ql397l9bivva3",
|
|
"depends": ["Biostrings", "PolynomF", "lattice"]
|
|
},
|
|
"BREW3R_r": {
|
|
"name": "BREW3R.r",
|
|
"version": "1.0.1",
|
|
"sha256": "0i0r5sryvq721dlffs9d092776jx0j7r9mfiyi24glgqalmrslag",
|
|
"depends": ["GenomicRanges", "S4Vectors", "rlang"]
|
|
},
|
|
"BSgenome": {
|
|
"name": "BSgenome",
|
|
"version": "1.72.0",
|
|
"sha256": "1pjbkakrycvaifl7xrmri2h94zc1ap8a9d1q4c83qji3xa21cm4q",
|
|
"depends": ["BiocGenerics", "BiocIO", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "XVector", "matrixStats", "rtracklayer"]
|
|
},
|
|
"BSgenomeForge": {
|
|
"name": "BSgenomeForge",
|
|
"version": "1.4.0",
|
|
"sha256": "0100y9lqj0xjz1ycazn4v74m7h26fxdbb03xa7ryvpdq61b0gc8p",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocIO", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "rtracklayer"]
|
|
},
|
|
"BUMHMM": {
|
|
"name": "BUMHMM",
|
|
"version": "1.28.0",
|
|
"sha256": "0c35x7bjp97qiahykkvk8krsnvy1w29qvrb6x8wa4vwn58a56naa",
|
|
"depends": ["Biostrings", "IRanges", "SummarizedExperiment", "devtools", "gtools", "stringi"]
|
|
},
|
|
"BUS": {
|
|
"name": "BUS",
|
|
"version": "1.60.0",
|
|
"sha256": "1xwdqz9lyz110bh96ihldwg50k7fbnvnkivyqd9qj1iwk3vz7qd6",
|
|
"depends": ["infotheo", "minet"]
|
|
},
|
|
"BUScorrect": {
|
|
"name": "BUScorrect",
|
|
"version": "1.22.0",
|
|
"sha256": "1crq6h9s3kxk1z7xpapq1jwwqwpa2fznhykm84k2zjl8jzvc7lmi",
|
|
"depends": ["SummarizedExperiment", "gplots"]
|
|
},
|
|
"BUSpaRse": {
|
|
"name": "BUSpaRse",
|
|
"version": "1.18.1",
|
|
"sha256": "0dvs4c47v27ndc7xvpzx1acrh9v6dw99nz21lf1q7d0liiy26iyb",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BH", "BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "RcppArmadillo", "RcppProgress", "S4Vectors", "biomaRt", "dplyr", "ensembldb", "ggplot2", "magrittr", "plyranges", "stringr", "tibble", "tidyr", "zeallot"]
|
|
},
|
|
"BUSseq": {
|
|
"name": "BUSseq",
|
|
"version": "1.10.0",
|
|
"sha256": "19ajpfgz3aj1p6955z128smanna1gff6dfgh7dz8vhjyyz5nbi1q",
|
|
"depends": ["S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "gplots"]
|
|
},
|
|
"BaalChIP": {
|
|
"name": "BaalChIP",
|
|
"version": "1.30.0",
|
|
"sha256": "1xm6czgbfz2rjrz5996d0n7xmlh9pd1mw9i8ac66pmn5fi44pbz2",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "coda", "doBy", "doParallel", "foreach", "ggplot2", "reshape2", "scales"]
|
|
},
|
|
"BadRegionFinder": {
|
|
"name": "BadRegionFinder",
|
|
"version": "1.32.0",
|
|
"sha256": "1hs1mv8gj4w0wk6sw6r08j237vw3lhjrv9zip5nk6l1g1r0pg597",
|
|
"depends": ["GenomicRanges", "Rsamtools", "S4Vectors", "VariantAnnotation", "biomaRt"]
|
|
},
|
|
"Banksy": {
|
|
"name": "Banksy",
|
|
"version": "1.0.0",
|
|
"sha256": "1qz5nhf2qcdwcbi4kbwdjgbxpql8w5391cnb8i73gj54chc8bvn1",
|
|
"depends": ["RcppHungarian", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "aricode", "data_table", "dbscan", "igraph", "irlba", "leidenAlg", "matrixStats", "mclust", "uwot"]
|
|
},
|
|
"BaseSpaceR": {
|
|
"name": "BaseSpaceR",
|
|
"version": "1.48.0",
|
|
"sha256": "02f2l42p08xags155qydz97ipg5vya0prmrlw4kvahgbq5p0xm44",
|
|
"depends": ["RCurl", "RJSONIO"]
|
|
},
|
|
"Basic4Cseq": {
|
|
"name": "Basic4Cseq",
|
|
"version": "1.40.0",
|
|
"sha256": "0ipxhdsqa8q49d2i17kvwyn6w2rpyl9jmq9bhch7cjawykjla5kf",
|
|
"depends": ["BSgenome_Ecoli_NCBI_20080805", "Biostrings", "GenomicAlignments", "GenomicRanges", "RCircos", "caTools"]
|
|
},
|
|
"BasicSTARRseq": {
|
|
"name": "BasicSTARRseq",
|
|
"version": "1.32.0",
|
|
"sha256": "1w69qc81pj3c4gq158ag59wbpm2aaiqmnnb79m0h7dlsnf964cjv",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "S4Vectors"]
|
|
},
|
|
"BatchQC": {
|
|
"name": "BatchQC",
|
|
"version": "2.0.0",
|
|
"sha256": "1kijj3ivlrwk4490jsb7vsrc7kmx32hla52cg3zb3vj6l5cwq7g6",
|
|
"depends": ["DESeq2", "EBSeq", "RColorBrewer", "SummarizedExperiment", "data_table", "dplyr", "ggdendro", "ggnewscale", "ggplot2", "limma", "matrixStats", "pheatmap", "reader", "reshape2", "scran", "shiny", "sva", "tibble", "tidyr", "tidyverse"]
|
|
},
|
|
"BayesKnockdown": {
|
|
"name": "BayesKnockdown",
|
|
"version": "1.30.0",
|
|
"sha256": "05plmh36s00jh4ckcgvi2s9ypa8mxlsy23mzysazbfsr022x3vqa",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"BayesSpace": {
|
|
"name": "BayesSpace",
|
|
"version": "1.14.0",
|
|
"sha256": "0q1haqsyc61yxz1n197sv3s6csjpns4fi288kf58nnf5jgdwnyx5",
|
|
"depends": ["BiocFileCache", "BiocSingular", "DirichletReg", "Matrix", "RCurl", "Rcpp", "RcppArmadillo", "RcppDist", "RcppProgress", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "assertthat", "coda", "ggplot2", "mclust", "purrr", "rhdf5", "scales", "scater", "scran", "xgboost"]
|
|
},
|
|
"BeadDataPackR": {
|
|
"name": "BeadDataPackR",
|
|
"version": "1.56.0",
|
|
"sha256": "0wz3prri0mfjczmb432faxfjc99wg4lq26l3a60rmxyxq8mcnpkv",
|
|
"depends": []
|
|
},
|
|
"BgeeCall": {
|
|
"name": "BgeeCall",
|
|
"version": "1.20.1",
|
|
"sha256": "02k83a01fb4gydnw81j2vc3d1m92y0n44bskbdrlm7cb1zscvc13",
|
|
"depends": ["Biostrings", "GenomicFeatures", "biomaRt", "data_table", "dplyr", "jsonlite", "rhdf5", "rslurm", "rtracklayer", "sjmisc", "txdbmaker", "tximport"]
|
|
},
|
|
"BgeeDB": {
|
|
"name": "BgeeDB",
|
|
"version": "2.30.0",
|
|
"sha256": "1jbb93inv7z0i8b1jr6ax98gqkqn73m86hj61irgyysk7hn4bbg6",
|
|
"depends": ["Biobase", "RCurl", "RSQLite", "R_utils", "curl", "data_table", "digest", "dplyr", "graph", "tidyr", "topGO"]
|
|
},
|
|
"BiFET": {
|
|
"name": "BiFET",
|
|
"version": "1.24.0",
|
|
"sha256": "148j41mawxvzyal9lfjy7h1gp0w8zwmgc7s32wiqa30qjcc82snx",
|
|
"depends": ["GenomicRanges", "poibin"]
|
|
},
|
|
"BiGGR": {
|
|
"name": "BiGGR",
|
|
"version": "1.40.0",
|
|
"sha256": "1ja5j9753rgx61jwkax0mzkxh7ybh3m4ampkr5ikw3afda23wg1z",
|
|
"depends": ["LIM", "hyperdraw", "hypergraph", "limSolve", "rsbml", "stringr"]
|
|
},
|
|
"BiRewire": {
|
|
"name": "BiRewire",
|
|
"version": "3.36.0",
|
|
"sha256": "1l3hkq6n7i9j82aym4ngwablj8jqb70a7y6skx0rjkflya6wbim7",
|
|
"depends": ["Matrix", "Rtsne", "igraph", "slam"]
|
|
},
|
|
"BiSeq": {
|
|
"name": "BiSeq",
|
|
"version": "1.44.0",
|
|
"sha256": "12nkdaz54ga133v38mmqaf3xcsx7ps2rcxxvni100vsk93hv155z",
|
|
"depends": ["Biobase", "BiocGenerics", "Formula", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "betareg", "globaltest", "lokern", "rtracklayer"]
|
|
},
|
|
"BicARE": {
|
|
"name": "BicARE",
|
|
"version": "1.62.0",
|
|
"sha256": "0397xg4sj988b0chzfpy23dszpjbdkch59wfynbn4pwyvl0qmp9j",
|
|
"depends": ["Biobase", "GO_db", "GSEABase", "multtest"]
|
|
},
|
|
"BindingSiteFinder": {
|
|
"name": "BindingSiteFinder",
|
|
"version": "2.2.0",
|
|
"sha256": "1icgz7wfayqzr1wd0n7sb71bh149d4d1m7rh5s5ap07llnn7vsq1",
|
|
"depends": ["ComplexHeatmap", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "dplyr", "forcats", "ggdist", "ggforce", "ggplot2", "kableExtra", "lifecycle", "matrixStats", "plyr", "rlang", "rtracklayer", "tibble", "tidyr"]
|
|
},
|
|
"BioCartaImage": {
|
|
"name": "BioCartaImage",
|
|
"version": "1.2.0",
|
|
"sha256": "0kcqhgr6q86b874i56p0cai8kiqbx8q3vk40xq221dzjf19r8ag8",
|
|
"depends": ["magick"]
|
|
},
|
|
"BioCor": {
|
|
"name": "BioCor",
|
|
"version": "1.28.0",
|
|
"sha256": "0jpi51f9cv3sv4l69974bba8c8k0inb6zxviv7i907ldaiiblr07",
|
|
"depends": ["BiocParallel", "GSEABase", "Matrix"]
|
|
},
|
|
"BioMVCClass": {
|
|
"name": "BioMVCClass",
|
|
"version": "1.72.0",
|
|
"sha256": "0dfdksk3nc6pzw21sbd4cdqr05489qh4984wv0f906hyb52waxk2",
|
|
"depends": ["Biobase", "MVCClass", "Rgraphviz", "graph"]
|
|
},
|
|
"BioNAR": {
|
|
"name": "BioNAR",
|
|
"version": "1.6.3",
|
|
"sha256": "0gr3pf34xgs778bfndmml9df7l0w6ypa8d83h31krlxzd1h4wz0h",
|
|
"depends": ["AnnotationDbi", "GO_db", "Matrix", "RSpectra", "Rdpack", "WGCNA", "clusterCons", "cowplot", "data_table", "dplyr", "fgsea", "ggplot2", "ggrepel", "igraph", "latex2exp", "minpack_lm", "org_Hs_eg_db", "poweRlaw", "rSpectral", "scales", "stringr", "viridis"]
|
|
},
|
|
"BioNERO": {
|
|
"name": "BioNERO",
|
|
"version": "1.12.0",
|
|
"sha256": "02jqlpd31mhxbvksj7ny34f6dv8skkkr76lkiaj5gm078kfr0zx5",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "GENIE3", "NetRep", "RColorBrewer", "SummarizedExperiment", "WGCNA", "dynamicTreeCut", "ggdendro", "ggnetwork", "ggplot2", "ggrepel", "igraph", "intergraph", "matrixStats", "minet", "patchwork", "reshape2", "rlang", "sva"]
|
|
},
|
|
"BioNet": {
|
|
"name": "BioNet",
|
|
"version": "1.64.0",
|
|
"sha256": "0lpqvm0cx7pnb99jh7na49x10w2v04xydiwxn9l41ngxysp8v0h6",
|
|
"depends": ["AnnotationDbi", "Biobase", "RBGL", "graph", "igraph"]
|
|
},
|
|
"BioQC": {
|
|
"name": "BioQC",
|
|
"version": "1.32.0",
|
|
"sha256": "14yrqf5wl9r596zvlpf4y48nykg0gwzlxfgi3kdx0i5pfgvi43vk",
|
|
"depends": ["Biobase", "Rcpp", "edgeR"]
|
|
},
|
|
"Biobase": {
|
|
"name": "Biobase",
|
|
"version": "2.64.0",
|
|
"sha256": "09xnl0qq4qsd981i9srw07228lgashcvcavi8k0izdzfyk6ka7m2",
|
|
"depends": ["BiocGenerics"]
|
|
},
|
|
"BiocBaseUtils": {
|
|
"name": "BiocBaseUtils",
|
|
"version": "1.6.0",
|
|
"sha256": "0f8bzhpi6xla52sbvpd20sgli7mp5xfk2aqpcv6jkf8s59jsmn54",
|
|
"depends": []
|
|
},
|
|
"BiocBook": {
|
|
"name": "BiocBook",
|
|
"version": "1.2.0",
|
|
"sha256": "0rdsx2slwp69l6svsaj3pndd6bv318jkla5j84avwgfi63wks092",
|
|
"depends": ["BiocGenerics", "available", "cli", "dplyr", "gert", "gh", "gitcreds", "glue", "httr", "purrr", "quarto", "renv", "rlang", "rprojroot", "stringr", "tibble", "usethis", "yaml"]
|
|
},
|
|
"BiocCheck": {
|
|
"name": "BiocCheck",
|
|
"version": "1.40.0",
|
|
"sha256": "0rvr68d5anir7bj913nxwwfj7i3h2dvadcfvjjdbdr3m35wyx1g8",
|
|
"depends": ["BiocBaseUtils", "BiocFileCache", "BiocManager", "biocViews", "callr", "codetools", "graph", "httr2", "knitr", "rvest", "stringdist"]
|
|
},
|
|
"BiocFHIR": {
|
|
"name": "BiocFHIR",
|
|
"version": "1.6.0",
|
|
"sha256": "0zw59xb6jxxqg9aiwn6h4ak4056b64y22irkysl51rvdrb12n32h",
|
|
"depends": ["BiocBaseUtils", "DT", "dplyr", "graph", "jsonlite", "shiny", "tidyr", "visNetwork"]
|
|
},
|
|
"BiocFileCache": {
|
|
"name": "BiocFileCache",
|
|
"version": "2.12.0",
|
|
"sha256": "0jv6hni5x91ssvz4ilhi3y6lylrw4w3xfk8ljmq6gjvyl886sw9f",
|
|
"depends": ["DBI", "RSQLite", "curl", "dbplyr", "dplyr", "filelock", "httr"]
|
|
},
|
|
"BiocGenerics": {
|
|
"name": "BiocGenerics",
|
|
"version": "0.50.0",
|
|
"sha256": "0500ya3df53xx1dfdmk50bh30ja28y6qkdwds1c1m4c7q0h2xmqi",
|
|
"depends": []
|
|
},
|
|
"BiocHail": {
|
|
"name": "BiocHail",
|
|
"version": "1.4.0",
|
|
"sha256": "1p8wkl31c7snv8l8zkmg2hf9pb2p0gif4gfgjia0npi91y2h5hfp",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "basilisk", "dplyr", "reticulate"]
|
|
},
|
|
"BiocHubsShiny": {
|
|
"name": "BiocHubsShiny",
|
|
"version": "1.4.0",
|
|
"sha256": "19ihc6fi04kbgmlvn5k1cjpckc03p5yfjpc3gjmmf3pn69qgljzf",
|
|
"depends": ["AnnotationHub", "DT", "ExperimentHub", "S4Vectors", "htmlwidgets", "shiny", "shinyAce", "shinyjs", "shinythemes", "shinytoastr"]
|
|
},
|
|
"BiocIO": {
|
|
"name": "BiocIO",
|
|
"version": "1.14.0",
|
|
"sha256": "0ppsldpn3vbliimjvnxadn61crck45j581dw4lc5f3w1vy5vs44h",
|
|
"depends": ["BiocGenerics", "S4Vectors"]
|
|
},
|
|
"BiocNeighbors": {
|
|
"name": "BiocNeighbors",
|
|
"version": "1.22.0",
|
|
"sha256": "1krg4cs406ymk27qcj3j1jsl8vl4j9k5zvwf4vzxgbw3x6lpywid",
|
|
"depends": ["BiocParallel", "Matrix", "Rcpp", "RcppHNSW", "S4Vectors"]
|
|
},
|
|
"BiocOncoTK": {
|
|
"name": "BiocOncoTK",
|
|
"version": "1.24.0",
|
|
"sha256": "0h4cr7lrmbyx7kdj81s7ff75svr01rvzn54svqi93vjilawmpbm3",
|
|
"depends": ["ComplexHeatmap", "DBI", "DT", "GenomicFeatures", "GenomicRanges", "IRanges", "MASS", "Rgraphviz", "S4Vectors", "SummarizedExperiment", "bigrquery", "car", "curatedTCGAData", "dplyr", "ggplot2", "ggpubr", "graph", "httr", "magrittr", "plyr", "rjson", "scales", "shiny"]
|
|
},
|
|
"BiocParallel": {
|
|
"name": "BiocParallel",
|
|
"version": "1.38.0",
|
|
"sha256": "1miw26r2a8wvgnfr9sapfv6rqk219rmsyjh6v04annafxdxy15ky",
|
|
"depends": ["BH", "codetools", "cpp11", "futile_logger", "snow"]
|
|
},
|
|
"BiocPkgTools": {
|
|
"name": "BiocPkgTools",
|
|
"version": "1.22.0",
|
|
"sha256": "1nbzr1yjz65r0y8c312hnvagnc1pdgda4v6sxbpvlkl3z93jsy6x",
|
|
"depends": ["BiocFileCache", "BiocManager", "DT", "RBGL", "biocViews", "dplyr", "gh", "graph", "htmltools", "htmlwidgets", "httr", "igraph", "jsonlite", "magrittr", "readr", "rlang", "rorcid", "rvest", "stringr", "tibble", "xml2"]
|
|
},
|
|
"BiocSet": {
|
|
"name": "BiocSet",
|
|
"version": "1.18.0",
|
|
"sha256": "1r1if1k7qgni3dk7gsl4vcyvd6hnhx94rcq5yi9w7dvyyrbvnwwa",
|
|
"depends": ["AnnotationDbi", "BiocIO", "KEGGREST", "S4Vectors", "dplyr", "ontologyIndex", "plyr", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"BiocSingular": {
|
|
"name": "BiocSingular",
|
|
"version": "1.20.0",
|
|
"sha256": "1xl9wn3slj3ywjglb8zq2p0ifx4xwxbqsm99fjlf6hanfhmnxyay",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DelayedArray", "Matrix", "Rcpp", "S4Vectors", "ScaledMatrix", "beachmat", "irlba", "rsvd"]
|
|
},
|
|
"BiocSklearn": {
|
|
"name": "BiocSklearn",
|
|
"version": "1.26.0",
|
|
"sha256": "19s38zpgdscbrqypyg17l1jw53x88lgkcrqg20gchfi6mig36a3w",
|
|
"depends": ["SummarizedExperiment", "basilisk", "reticulate"]
|
|
},
|
|
"BiocStyle": {
|
|
"name": "BiocStyle",
|
|
"version": "2.32.1",
|
|
"sha256": "1m0nn2m548726w576mx8mx29xj428q1rkpn7z7a7m8kzgcvvgkkr",
|
|
"depends": ["BiocManager", "bookdown", "knitr", "rmarkdown", "yaml"]
|
|
},
|
|
"BiocVersion": {
|
|
"name": "BiocVersion",
|
|
"version": "3.19.1",
|
|
"sha256": "1zhm28313gsbscfhfdbqizvb5v67n4l0dapjmb1xq010ikly95mh",
|
|
"depends": []
|
|
},
|
|
"BiocWorkflowTools": {
|
|
"name": "BiocWorkflowTools",
|
|
"version": "1.30.0",
|
|
"sha256": "1gw0lmdhkzp5ar54yv9jagqmpxp7j9ajfmdqb2y2qrnhh39hymzs",
|
|
"depends": ["BiocStyle", "bookdown", "git2r", "httr", "knitr", "rmarkdown", "rstudioapi", "stringr", "usethis"]
|
|
},
|
|
"Biostrings": {
|
|
"name": "Biostrings",
|
|
"version": "2.72.1",
|
|
"sha256": "067vy2v7spbdsknvi0fcpdi085kn8v20pyrhkc7wy357v21h7hgs",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "IRanges", "S4Vectors", "XVector", "crayon"]
|
|
},
|
|
"BloodGen3Module": {
|
|
"name": "BloodGen3Module",
|
|
"version": "1.12.0",
|
|
"sha256": "0mksc9jfzcj255a01hg8gjrs6k2plkpfqgv951csldvy7vqrdkma",
|
|
"depends": ["ComplexHeatmap", "ExperimentHub", "SummarizedExperiment", "V8", "circlize", "ggplot2", "gtools", "limma", "matrixStats", "preprocessCore", "randomcoloR", "reshape2", "testthat"]
|
|
},
|
|
"BridgeDbR": {
|
|
"name": "BridgeDbR",
|
|
"version": "2.14.0",
|
|
"sha256": "0nsn1i5ah3l95wd1afcppxb364l44r3apma0aa79g4jday4zhbv5",
|
|
"depends": ["curl", "rJava"]
|
|
},
|
|
"BrowserViz": {
|
|
"name": "BrowserViz",
|
|
"version": "2.26.0",
|
|
"sha256": "0wq1vc6m54kb8dw6c0qzw8hvvwjq78lqd18whph2nmywjcy9j9hw",
|
|
"depends": ["BiocGenerics", "httpuv", "jsonlite"]
|
|
},
|
|
"BubbleTree": {
|
|
"name": "BubbleTree",
|
|
"version": "2.34.0",
|
|
"sha256": "0l69q8l6dacyqdbfdnxlg70f064xm8w5p07pi2x0baacxv8bs5d4",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocStyle", "GenomicRanges", "IRanges", "RColorBrewer", "WriteXLS", "biovizBase", "dplyr", "e1071", "ggplot2", "gridExtra", "gtable", "gtools", "limma", "magrittr", "plyr"]
|
|
},
|
|
"BufferedMatrix": {
|
|
"name": "BufferedMatrix",
|
|
"version": "1.68.0",
|
|
"sha256": "1rd446pzwplkjzqqg19ba3gn94kvsxxi472n6r9raxrggqic0bmi",
|
|
"depends": []
|
|
},
|
|
"BufferedMatrixMethods": {
|
|
"name": "BufferedMatrixMethods",
|
|
"version": "1.68.0",
|
|
"sha256": "1y8skcqbql4mi1zi53771jwsyw8665b13xyh9bnrv18j18axldk6",
|
|
"depends": ["BufferedMatrix"]
|
|
},
|
|
"BumpyMatrix": {
|
|
"name": "BumpyMatrix",
|
|
"version": "1.12.0",
|
|
"sha256": "1f8xa184x6l363psbqn0a5yh16ghm2mciv726aii58bkln5qwkmb",
|
|
"depends": ["IRanges", "Matrix", "S4Vectors"]
|
|
},
|
|
"CAEN": {
|
|
"name": "CAEN",
|
|
"version": "1.12.0",
|
|
"sha256": "1z4prnbh7y6i9b0d3y4fncmsj8vrz4i0k48l69kh14xi9lyhc773",
|
|
"depends": ["PoiClaClu", "SummarizedExperiment"]
|
|
},
|
|
"CAFE": {
|
|
"name": "CAFE",
|
|
"version": "1.40.0",
|
|
"sha256": "1vq1yf78yfsfnsjpqb89zghzr677mdwvpi5zl3ikz2j5z40h1rjj",
|
|
"depends": ["Biobase", "GenomicRanges", "IRanges", "affy", "annotate", "biovizBase", "ggbio", "ggplot2", "gridExtra"]
|
|
},
|
|
"CAGEfightR": {
|
|
"name": "CAGEfightR",
|
|
"version": "1.24.0",
|
|
"sha256": "1i6q5bwg55d3iydcy3h6j9hg30581vvc592rs5cac310qxzcj8hj",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicFiles", "GenomicInteractions", "GenomicRanges", "Gviz", "IRanges", "InteractionSet", "Matrix", "S4Vectors", "SummarizedExperiment", "assertthat", "pryr", "rtracklayer"]
|
|
},
|
|
"CAGEr": {
|
|
"name": "CAGEr",
|
|
"version": "2.10.0",
|
|
"sha256": "1amx7l5y1v8ccmlpjmr9wm2dbc85xadx4ayy8m45vabi97j8nrp4",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "CAGEfightR", "DelayedArray", "DelayedMatrixStats", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "KernSmooth", "MultiAssayExperiment", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VGAM", "data_table", "formula_tools", "ggplot2", "gtools", "memoise", "plyr", "reshape2", "rtracklayer", "som", "stringdist", "stringi", "vegan"]
|
|
},
|
|
"CAMERA": {
|
|
"name": "CAMERA",
|
|
"version": "1.60.0",
|
|
"sha256": "1wcihfi7vzdb5xkk2r7cdb4pqdbnph01m3dsz126984rzplpcd44",
|
|
"depends": ["Biobase", "Hmisc", "RBGL", "graph", "igraph", "xcms"]
|
|
},
|
|
"CARNIVAL": {
|
|
"name": "CARNIVAL",
|
|
"version": "2.14.0",
|
|
"sha256": "05cjffkhawhrbvd9m4blm8klkhpv939qgnhpyx0mqfmk8b63rc26",
|
|
"depends": ["dplyr", "igraph", "lpSolve", "readr", "rjson", "rmarkdown", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"CATALYST": {
|
|
"name": "CATALYST",
|
|
"version": "1.28.0",
|
|
"sha256": "168yfkqlg6af8ndlw4wzb9adg4lgkgkjbsi4a435ks0n4c9dycb7",
|
|
"depends": ["ComplexHeatmap", "ConsensusClusterPlus", "FlowSOM", "Matrix", "RColorBrewer", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circlize", "cowplot", "data_table", "dplyr", "drc", "flowCore", "ggplot2", "ggrepel", "ggridges", "gridExtra", "matrixStats", "nnls", "purrr", "reshape2", "scales", "scater"]
|
|
},
|
|
"CBEA": {
|
|
"name": "CBEA",
|
|
"version": "1.4.0",
|
|
"sha256": "0j43lvz55xawwk723rsfpir6vir5wbxpwslpk4x2frslf5i00mky",
|
|
"depends": ["BiocParallel", "BiocSet", "Rcpp", "SummarizedExperiment", "TreeSummarizedExperiment", "dplyr", "fitdistrplus", "generics", "glue", "goftest", "lmom", "magrittr", "mixtools", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"CBNplot": {
|
|
"name": "CBNplot",
|
|
"version": "1.4.0",
|
|
"sha256": "1n85clswpk1xxfq423sgk38qb9kjkjj2kghnxw8a4618vxypwsrv",
|
|
"depends": ["BiocFileCache", "ExperimentHub", "Rmpfr", "bnlearn", "clusterProfiler", "depmap", "dplyr", "enrichplot", "ggdist", "ggforce", "ggplot2", "ggraph", "graphite", "graphlayouts", "igraph", "magrittr", "oaqc", "org_Hs_eg_db", "patchwork", "purrr", "pvclust", "reshape2", "rlang", "stringr", "tidyr"]
|
|
},
|
|
"CCPROMISE": {
|
|
"name": "CCPROMISE",
|
|
"version": "1.30.0",
|
|
"sha256": "0qicm8zgr4897m0ldlmsrchi66b3swfdxy2gv12pnssjmrybq5di",
|
|
"depends": ["Biobase", "CCP", "GSEABase", "PROMISE"]
|
|
},
|
|
"CCPlotR": {
|
|
"name": "CCPlotR",
|
|
"version": "1.2.0",
|
|
"sha256": "05qh8yqk2yv4vw314aflys7qn4kwhy839wj5cdw9iysaklkyjscg",
|
|
"depends": ["ComplexHeatmap", "RColorBrewer", "circlize", "dplyr", "forcats", "ggbump", "ggh4x", "ggplot2", "ggraph", "ggtext", "igraph", "patchwork", "plyr", "scales", "scatterpie", "stringr", "tibble", "tidyr", "viridis"]
|
|
},
|
|
"CDI": {
|
|
"name": "CDI",
|
|
"version": "1.2.0",
|
|
"sha256": "0nc4s8prs6p0k7qp2lc5fzdqx177y1xamrwizldwi5p3yq1zq1nx",
|
|
"depends": ["BiocParallel", "Seurat", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "ggsci", "matrixStats", "reshape2"]
|
|
},
|
|
"CEMiTool": {
|
|
"name": "CEMiTool",
|
|
"version": "1.28.0",
|
|
"sha256": "1pcyw8njyrcjriyzq52km0qhn1n288gqvn1qdkzx2yfv4a1i6rxk",
|
|
"depends": ["DT", "WGCNA", "clusterProfiler", "data_table", "dplyr", "fastcluster", "fgsea", "ggdendro", "ggplot2", "ggpmisc", "ggrepel", "ggthemes", "gridExtra", "gtable", "htmltools", "igraph", "intergraph", "knitr", "matrixStats", "network", "pracma", "rmarkdown", "scales", "sna", "stringr"]
|
|
},
|
|
"CFAssay": {
|
|
"name": "CFAssay",
|
|
"version": "1.38.0",
|
|
"sha256": "1j2bprw0dq4cn4md2ixh3jmk507w0zlzm65gvx9k3z924la0hyhv",
|
|
"depends": []
|
|
},
|
|
"CGEN": {
|
|
"name": "CGEN",
|
|
"version": "3.40.0",
|
|
"sha256": "01ayir95zhdcxnczzggx914q9x0awcr3hvfxvswqdjcl5a5490k1",
|
|
"depends": ["mvtnorm", "survival"]
|
|
},
|
|
"CGHbase": {
|
|
"name": "CGHbase",
|
|
"version": "1.64.0",
|
|
"sha256": "1fz39fdkfvfhzm69pfvliqvp48wsldwm3kpgbsaacrdh46jg5vzk",
|
|
"depends": ["Biobase", "marray"]
|
|
},
|
|
"CGHcall": {
|
|
"name": "CGHcall",
|
|
"version": "2.66.0",
|
|
"sha256": "1gjd3ggiw93cwcacjb1472ia98aaapj9gln04v5pbwmp2r4xfcs7",
|
|
"depends": ["Biobase", "CGHbase", "DNAcopy", "impute", "snowfall"]
|
|
},
|
|
"CGHnormaliter": {
|
|
"name": "CGHnormaliter",
|
|
"version": "1.58.0",
|
|
"sha256": "06zsh097v8hfz9yh7q4ppvnlxvgqgs3yzm724khbzi8xfz1h3yja",
|
|
"depends": ["Biobase", "CGHbase", "CGHcall"]
|
|
},
|
|
"CGHregions": {
|
|
"name": "CGHregions",
|
|
"version": "1.62.0",
|
|
"sha256": "0swyfbc37mxghphgrlh735gg3w3wnlmplrrlksr7jb8gdzvcczbk",
|
|
"depends": ["Biobase", "CGHbase"]
|
|
},
|
|
"CHETAH": {
|
|
"name": "CHETAH",
|
|
"version": "1.20.0",
|
|
"sha256": "19vb0c9kla6jn79v5sc8sig195lnzzhki2089pvjsy4gw2q3nmnh",
|
|
"depends": ["S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "bioDist", "corrplot", "cowplot", "dendextend", "ggplot2", "pheatmap", "plotly", "reshape2", "shiny"]
|
|
},
|
|
"CHRONOS": {
|
|
"name": "CHRONOS",
|
|
"version": "1.32.0",
|
|
"sha256": "06ynbgmzp820l85n25lrhks1vl1ccaf3giypgp59s79v496vps3x",
|
|
"depends": ["RBGL", "RCurl", "XML", "biomaRt", "circlize", "doParallel", "foreach", "graph", "igraph", "openxlsx", "rJava"]
|
|
},
|
|
"CIMICE": {
|
|
"name": "CIMICE",
|
|
"version": "1.12.0",
|
|
"sha256": "18m6mb1r9s8cqi1lsignmf9p8q7qigazxyif14z6f1h5kdcs6707",
|
|
"depends": ["Matrix", "assertthat", "dplyr", "expm", "ggcorrplot", "ggplot2", "ggraph", "glue", "igraph", "maftools", "networkD3", "purrr", "tidygraph", "tidyr", "visNetwork"]
|
|
},
|
|
"CINdex": {
|
|
"name": "CINdex",
|
|
"version": "1.32.0",
|
|
"sha256": "1cgq0bcrgdwzxci47issdck4pz8pnbpfzz7i57mi0ga3jqih0g2i",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "bitops", "dplyr", "gplots", "gridExtra", "png", "som", "stringr"]
|
|
},
|
|
"CMA": {
|
|
"name": "CMA",
|
|
"version": "1.62.0",
|
|
"sha256": "08q64y5f52p3skpxk7fva30h41ar3751jk3528gicnqngbb3wv3g",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"CNAnorm": {
|
|
"name": "CNAnorm",
|
|
"version": "1.50.0",
|
|
"sha256": "0z9x4khrsdinb5dhi7zgfa4pj55h7300fp3a636akwjq3pwzlvlp",
|
|
"depends": ["DNAcopy"]
|
|
},
|
|
"CNEr": {
|
|
"name": "CNEr",
|
|
"version": "1.40.0",
|
|
"sha256": "19kfh7p8zlb1nbwpsj6i1b7pqy829dij7n7iavznhxw44cmif6sv",
|
|
"depends": ["BiocGenerics", "Biostrings", "DBI", "GO_db", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "KEGGREST", "RSQLite", "R_utils", "S4Vectors", "XVector", "annotate", "ggplot2", "poweRlaw", "pwalign", "readr", "reshape2", "rtracklayer"]
|
|
},
|
|
"CNORdt": {
|
|
"name": "CNORdt",
|
|
"version": "1.46.0",
|
|
"sha256": "1f9d2jmqxcmzvwvshf8yni0j28y13cdb5w9z1mcl7f3gcd0vn3rx",
|
|
"depends": ["CellNOptR", "abind"]
|
|
},
|
|
"CNORfeeder": {
|
|
"name": "CNORfeeder",
|
|
"version": "1.44.0",
|
|
"sha256": "1q1xpdg0qbh5cqnjc080gbkaw20p3xksc76f7dxsprlnzzad9id5",
|
|
"depends": ["CellNOptR", "graph"]
|
|
},
|
|
"CNORfuzzy": {
|
|
"name": "CNORfuzzy",
|
|
"version": "1.46.0",
|
|
"sha256": "0wp9ma4c1nph6vximqizgmwvq29ijf5wkjda7yxc23hl51wig0gg",
|
|
"depends": ["CellNOptR", "nloptr"]
|
|
},
|
|
"CNORode": {
|
|
"name": "CNORode",
|
|
"version": "1.46.0",
|
|
"sha256": "0j66h000p02qnd8jrhdydggxiljynndfvjv9vlh844mb8n0dxx53",
|
|
"depends": ["CellNOptR", "genalg"]
|
|
},
|
|
"CNTools": {
|
|
"name": "CNTools",
|
|
"version": "1.60.0",
|
|
"sha256": "1m049jdb1vp5161q4zhcxwbzbzappdg02h80ar9ppwd10chf3bsm",
|
|
"depends": ["genefilter"]
|
|
},
|
|
"CNVMetrics": {
|
|
"name": "CNVMetrics",
|
|
"version": "1.8.0",
|
|
"sha256": "1vf04v7sr4f8mizzvbr3q4w83vdb62mabg5pl5dh53zvhrrzk1hi",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "S4Vectors", "gridExtra", "magrittr", "pheatmap", "rBeta2009"]
|
|
},
|
|
"CNVPanelizer": {
|
|
"name": "CNVPanelizer",
|
|
"version": "1.36.0",
|
|
"sha256": "0gpi1psr14b572xn4qx92lfxwy6d7jdkarf67w7f3glvif93vm9k",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "NOISeq", "Rsamtools", "S4Vectors", "foreach", "ggplot2", "gplots", "openxlsx", "plyr", "reshape2", "shiny", "shinyFiles", "shinyjs", "stringr", "testthat"]
|
|
},
|
|
"CNVRanger": {
|
|
"name": "CNVRanger",
|
|
"version": "1.20.0",
|
|
"sha256": "1lwav9nv9rm7zyqxl9sx46vp4016i2175hvys3skj8myyjgcdd7n",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GDSArray", "GenomeInfoDb", "GenomicRanges", "IRanges", "RaggedExperiment", "S4Vectors", "SNPRelate", "SummarizedExperiment", "data_table", "edgeR", "gdsfmt", "lattice", "limma", "plyr", "qqman", "rappdirs", "reshape2"]
|
|
},
|
|
"CNVfilteR": {
|
|
"name": "CNVfilteR",
|
|
"version": "1.18.0",
|
|
"sha256": "1jqpdqcnyxww2h5x784yl3i07i3x5kf0xyqgv558rzs936gzc23a",
|
|
"depends": ["Biostrings", "CopyNumberPlots", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "SummarizedExperiment", "VariantAnnotation", "assertthat", "karyoploteR", "pracma", "regioneR"]
|
|
},
|
|
"CNViz": {
|
|
"name": "CNViz",
|
|
"version": "1.12.0",
|
|
"sha256": "1s7j8lrl999b7v76z91y56m8nyy3lwjmqlnd1qpxg23jdlgb6bhv",
|
|
"depends": ["CopyNumberPlots", "DT", "GenomicRanges", "dplyr", "karyoploteR", "magrittr", "plotly", "scales", "shiny"]
|
|
},
|
|
"CNVrd2": {
|
|
"name": "CNVrd2",
|
|
"version": "1.42.0",
|
|
"sha256": "1kbs82a7pri8xv3ci9xdi47ml7r70wjxi0jnsxhrzbaqjss5b4v6",
|
|
"depends": ["DNAcopy", "IRanges", "Rsamtools", "VariantAnnotation", "ggplot2", "gridExtra", "rjags"]
|
|
},
|
|
"COCOA": {
|
|
"name": "COCOA",
|
|
"version": "2.18.0",
|
|
"sha256": "0achirgsp2psybk140wiiagjr9qsapkhdmy4mnf5zg4hc8nx3yn3",
|
|
"depends": ["Biobase", "BiocGenerics", "ComplexHeatmap", "GenomicRanges", "IRanges", "MIRA", "S4Vectors", "data_table", "fitdistrplus", "ggplot2", "simpleCache", "tidyr"]
|
|
},
|
|
"CODEX": {
|
|
"name": "CODEX",
|
|
"version": "1.36.0",
|
|
"sha256": "0p3d7hqi14qclz4d7fhp3x4z2dnkwpzpzlgrwacj4njkw94cwdaz",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "Biostrings", "GenomeInfoDb", "IRanges", "Rsamtools", "S4Vectors"]
|
|
},
|
|
"COMPASS": {
|
|
"name": "COMPASS",
|
|
"version": "1.42.0",
|
|
"sha256": "0xh3ysmcz4bjqcyqdv9wrmfgblj3k7g7i6wiw2m1vmx5gf98rfpa",
|
|
"depends": ["BiocStyle", "RColorBrewer", "Rcpp", "abind", "clue", "coda", "data_table", "dplyr", "foreach", "knitr", "magrittr", "pdist", "plyr", "reshape2", "rlang", "rmarkdown", "scales", "tidyr"]
|
|
},
|
|
"CONFESS": {
|
|
"name": "CONFESS",
|
|
"version": "1.32.0",
|
|
"sha256": "14m7nz6ls58g4c45x5m7r30ms3kgxslg22jikjsi1cx49ycyk9dl",
|
|
"depends": ["EBImage", "MASS", "SamSPECTRAL", "changepoint", "cluster", "contrast", "data_table", "ecp", "flexmix", "flowClust", "flowCore", "flowMeans", "flowMerge", "flowPeaks", "foreach", "ggplot2", "limma", "moments", "outliers", "plotrix", "raster", "readbitmap", "reshape2", "waveslim", "wavethresh", "zoo"]
|
|
},
|
|
"CONSTANd": {
|
|
"name": "CONSTANd",
|
|
"version": "1.12.0",
|
|
"sha256": "17vfhh6w2sxnliv68wraf24z85dw369cs58nsrql6xgrm1wyp6h6",
|
|
"depends": []
|
|
},
|
|
"COSNet": {
|
|
"name": "COSNet",
|
|
"version": "1.38.0",
|
|
"sha256": "0bb5lz4yqhhq2qjx7381877bwyrmh8286m9yq3fhyhzm4g6l4hfn",
|
|
"depends": []
|
|
},
|
|
"COTAN": {
|
|
"name": "COTAN",
|
|
"version": "2.4.4",
|
|
"sha256": "1b4g6wkk90kjrv8dz4larg3b7pyyid3z7336niwjp7x0ms6hp3zw",
|
|
"depends": ["BiocSingular", "ComplexHeatmap", "Matrix", "PCAtools", "RColorBrewer", "Rfast", "Seurat", "assertthat", "circlize", "dendextend", "dplyr", "ggplot2", "ggrepel", "ggthemes", "parallelDist", "parallelly", "plyr", "rlang", "scales", "stringr", "tibble", "tidyr", "umap", "withr", "zeallot"]
|
|
},
|
|
"CRISPRball": {
|
|
"name": "CRISPRball",
|
|
"version": "1.0.0",
|
|
"sha256": "1gxwmasr37azvc7h98izv0npxq5n7hvk1bvl2rgj5fv6da2ddmki",
|
|
"depends": ["ComplexHeatmap", "DT", "InteractiveComplexHeatmap", "MAGeCKFlute", "PCAtools", "circlize", "colourpicker", "dittoSeq", "ggplot2", "htmlwidgets", "matrixStats", "plotly", "shiny", "shinyBS", "shinyWidgets", "shinycssloaders", "shinyjqui", "shinyjs"]
|
|
},
|
|
"CRISPRseek": {
|
|
"name": "CRISPRseek",
|
|
"version": "1.44.0",
|
|
"sha256": "1vmqwpbl1gplrr45bqs90np0cmrkqshw660k4sxmj9s9k0xdms7c",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "XVector", "data_table", "dplyr", "hash", "keras", "mltools", "reticulate", "rhdf5", "seqinr"]
|
|
},
|
|
"CRImage": {
|
|
"name": "CRImage",
|
|
"version": "1.52.0",
|
|
"sha256": "0nnyzgdn25s2m9x4xglp12z2b4fai5sbfnx935qadk0b9gb62bdg",
|
|
"depends": ["DNAcopy", "EBImage", "MASS", "aCGH", "e1071", "foreach", "sgeostat"]
|
|
},
|
|
"CSAR": {
|
|
"name": "CSAR",
|
|
"version": "1.56.0",
|
|
"sha256": "0gdzj5czyj2r7gf7fkliydy6w1cyl92lby071jfyihfz5hwh55yr",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors"]
|
|
},
|
|
"CSSQ": {
|
|
"name": "CSSQ",
|
|
"version": "1.16.0",
|
|
"sha256": "1jwrp0b6qkkc538j1vshqgkazajs9q3fq3dda3cl9a8cbma9jpfg",
|
|
"depends": ["GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "ggplot2", "rtracklayer"]
|
|
},
|
|
"CTDquerier": {
|
|
"name": "CTDquerier",
|
|
"version": "2.12.0",
|
|
"sha256": "11z3gy6gn735dydjissdc09kllfd9qvg0gsf5v7a700fz6d78j2a",
|
|
"depends": ["BiocFileCache", "RCurl", "S4Vectors", "ggplot2", "gridExtra", "igraph", "stringdist", "stringr"]
|
|
},
|
|
"CTSV": {
|
|
"name": "CTSV",
|
|
"version": "1.6.0",
|
|
"sha256": "1m7a0dqkpiwf234xags4fpg7s41bdhmsdd2ma375w49624wbwkyz",
|
|
"depends": ["BiocParallel", "SpatialExperiment", "SummarizedExperiment", "knitr", "pscl", "qvalue"]
|
|
},
|
|
"CTdata": {
|
|
"name": "CTdata",
|
|
"version": "1.4.0",
|
|
"sha256": "0hq3jfgb1sxzbs99m2r2xnymjz9dwaim3zpkn6icwgrfbgxil82l",
|
|
"depends": ["ExperimentHub"]
|
|
},
|
|
"CTexploreR": {
|
|
"name": "CTexploreR",
|
|
"version": "1.0.0",
|
|
"sha256": "0ld0hzd7vynwvks0bjggc3kfgdzb0jlsjxn1ggk68f2gxrqxv8i8",
|
|
"depends": ["BiocGenerics", "CTdata", "ComplexHeatmap", "GenomicRanges", "IRanges", "MatrixGenerics", "SingleCellExperiment", "SummarizedExperiment", "circlize", "dplyr", "ggplot2", "ggrepel", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"CaDrA": {
|
|
"name": "CaDrA",
|
|
"version": "1.2.0",
|
|
"sha256": "1m7ggdji6j64b6mz6ak2y8f8xyyi8l1gig5b13ksz7j6fgcbyx71",
|
|
"depends": ["MASS", "R_cache", "SummarizedExperiment", "doParallel", "ggplot2", "gplots", "gtable", "misc3d", "plyr", "ppcor", "reshape2"]
|
|
},
|
|
"CaMutQC": {
|
|
"name": "CaMutQC",
|
|
"version": "1.0.0",
|
|
"sha256": "1rri2730mpmz0nqb26kqfq950sgw0x97j8xk9vw09m7g89973zzs",
|
|
"depends": ["DT", "MesKit", "clusterProfiler", "data_table", "dplyr", "ggplot2", "maftools", "org_Hs_eg_db", "stringr", "tidyr", "vcfR"]
|
|
},
|
|
"Cardinal": {
|
|
"name": "Cardinal",
|
|
"version": "3.6.5",
|
|
"sha256": "08ka7llgnjprfxnwj6fdydsr6azxj66mgkyjx0g9hbdcqn5ph6av",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "CardinalIO", "EBImage", "Matrix", "ProtGenerics", "S4Vectors", "irlba", "matter", "nlme"]
|
|
},
|
|
"CardinalIO": {
|
|
"name": "CardinalIO",
|
|
"version": "1.2.1",
|
|
"sha256": "1kzqz2zba8i5z1pkwwi0hzb6fm7xh22bymkk1jwicyrk94fzfw1l",
|
|
"depends": ["S4Vectors", "matter", "ontologyIndex"]
|
|
},
|
|
"Category": {
|
|
"name": "Category",
|
|
"version": "2.70.0",
|
|
"sha256": "0paz6h8rsbqvlxxj4di8cl76aybgjr842z5gdv8xi6c2d7zwbclw",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "GSEABase", "Matrix", "RBGL", "annotate", "genefilter", "graph"]
|
|
},
|
|
"CausalR": {
|
|
"name": "CausalR",
|
|
"version": "1.36.0",
|
|
"sha256": "0rf37qjl80wczgmb8lbnvzyq10v1fkqdgll24cg4b3vfhsscw0fl",
|
|
"depends": ["igraph"]
|
|
},
|
|
"CeTF": {
|
|
"name": "CeTF",
|
|
"version": "1.16.0",
|
|
"sha256": "0vpy0ns19wnq9pqhkc1dlx2b0y9rjxznq61z242p53gvh05zmzxi",
|
|
"depends": ["ComplexHeatmap", "DESeq2", "GGally", "GenomicTools_fileHandler", "Matrix", "RCy3", "Rcpp", "RcppArmadillo", "S4Vectors", "SummarizedExperiment", "circlize", "clusterProfiler", "dplyr", "ggnetwork", "ggplot2", "ggpubr", "ggrepel", "igraph", "network"]
|
|
},
|
|
"CellBarcode": {
|
|
"name": "CellBarcode",
|
|
"version": "1.10.0",
|
|
"sha256": "006mlhzw5pwdr335q27f05jwwwra8fs563qph7ghlr8s7ws55q9g",
|
|
"depends": ["BH", "Biostrings", "Ckmeans_1d_dp", "Rcpp", "Rsamtools", "S4Vectors", "ShortRead", "data_table", "egg", "ggplot2", "magrittr", "plyr", "seqinr", "stringr", "zlibbioc"]
|
|
},
|
|
"CellBench": {
|
|
"name": "CellBench",
|
|
"version": "1.20.0",
|
|
"sha256": "0azswhd2r9yf2qlz31105kk911iaxfxd2b4drvdq2f57asqw6mwm",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "BiocParallel", "SingleCellExperiment", "assertthat", "dplyr", "glue", "lubridate", "magrittr", "memoise", "purrr", "rappdirs", "rlang", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"CellMapper": {
|
|
"name": "CellMapper",
|
|
"version": "1.30.0",
|
|
"sha256": "058f2ik0v7fw7cbk5fhc90zifg2dzc8bmrv0kdd2rshvxfjp48xv",
|
|
"depends": ["S4Vectors"]
|
|
},
|
|
"CellMixS": {
|
|
"name": "CellMixS",
|
|
"version": "1.20.0",
|
|
"sha256": "16l2kw8rbnhn4qyz6sg1pnjfc6cjc12lsx5qzyysnpbpmgm7yqrv",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "SingleCellExperiment", "SummarizedExperiment", "cowplot", "dplyr", "ggplot2", "ggridges", "kSamples", "magrittr", "purrr", "scater", "tidyr", "viridis"]
|
|
},
|
|
"CellNOptR": {
|
|
"name": "CellNOptR",
|
|
"version": "1.50.0",
|
|
"sha256": "0b6q0xrhyqnpzwkwsdywv008axhikmagpx11z85vik1mml12nhs7",
|
|
"depends": ["RBGL", "RCurl", "Rgraphviz", "XML", "ggplot2", "graph", "igraph", "rmarkdown", "stringi", "stringr"]
|
|
},
|
|
"CellScore": {
|
|
"name": "CellScore",
|
|
"version": "1.24.0",
|
|
"sha256": "17aspmnfs4asixn6cc12k0q4an70642cgx0wy650aqhhkqjlyq88",
|
|
"depends": ["Biobase", "RColorBrewer", "SummarizedExperiment", "gplots", "lsa", "squash"]
|
|
},
|
|
"CellTrails": {
|
|
"name": "CellTrails",
|
|
"version": "1.22.0",
|
|
"sha256": "0pqazyf5da9zw95gpmhlj9mbhvv78c0rl6cncy3pij293xcy02l4",
|
|
"depends": ["Biobase", "BiocGenerics", "EnvStats", "Rtsne", "SingleCellExperiment", "SummarizedExperiment", "cba", "dendextend", "dtw", "ggplot2", "ggrepel", "igraph", "maptree", "mgcv", "reshape2"]
|
|
},
|
|
"CelliD": {
|
|
"name": "CelliD",
|
|
"version": "1.12.0",
|
|
"sha256": "0c7hls5qasjd5ahrqxp2mpd402jc12pi0pgy7spcbp1fkqm8qvbl",
|
|
"depends": ["BiocParallel", "Matrix", "Rcpp", "RcppArmadillo", "Rtsne", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "data_table", "fastmatch", "fgsea", "ggplot2", "glue", "irlba", "matrixStats", "pbapply", "reticulate", "scater", "stringr", "tictoc", "umap"]
|
|
},
|
|
"Cepo": {
|
|
"name": "Cepo",
|
|
"version": "1.10.2",
|
|
"sha256": "1vqfb797q3pd69ana2m7vbd89jzqkbhc3xhfzskj5cxrggd4d2cv",
|
|
"depends": ["BiocParallel", "DelayedArray", "DelayedMatrixStats", "GSEABase", "HDF5Array", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "patchwork", "purrr", "reshape2", "rlang"]
|
|
},
|
|
"CexoR": {
|
|
"name": "CexoR",
|
|
"version": "1.42.0",
|
|
"sha256": "09376wzlknf8nlq81rrbbfsbbgd4mi5aagry51nykw5vc0870vdn",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "genomation", "idr", "rtracklayer"]
|
|
},
|
|
"ChAMP": {
|
|
"name": "ChAMP",
|
|
"version": "2.34.0",
|
|
"sha256": "06q539yhbmbp7qr71cwjai2vdw5nnhhjdv2ajlqmlyjpg04arc7v",
|
|
"depends": ["ChAMPdata", "DMRcate", "DNAcopy", "DT", "GenomicRanges", "Hmisc", "Illumina450ProbeVariants_db", "IlluminaHumanMethylation450kmanifest", "IlluminaHumanMethylationEPICanno_ilm10b4_hg19", "IlluminaHumanMethylationEPICmanifest", "RColorBrewer", "RPMM", "bumphunter", "combinat", "dendextend", "doParallel", "ggplot2", "globaltest", "goseq", "illuminaio", "impute", "isva", "kpmt", "limma", "marray", "matrixStats", "minfi", "missMethyl", "plotly", "plyr", "preprocessCore", "prettydoc", "quadprog", "qvalue", "rmarkdown", "shiny", "shinythemes", "sva", "wateRmelon"]
|
|
},
|
|
"ChIPComp": {
|
|
"name": "ChIPComp",
|
|
"version": "1.34.0",
|
|
"sha256": "013lmgdkj596gqzm0nlxjqpv0w94hap9vndp5znqpk4inq88gj8m",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Mmusculus_UCSC_mm9", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "limma", "rtracklayer"]
|
|
},
|
|
"ChIPQC": {
|
|
"name": "ChIPQC",
|
|
"version": "1.40.0",
|
|
"sha256": "0lnk5lchwjnrr03x2r6lwgrja42n0rhfp5w9sya2y69da47bcks4",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "DiffBind", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Nozzle_R1", "Rsamtools", "S4Vectors", "TxDb_Celegans_UCSC_ce6_ensGene", "TxDb_Dmelanogaster_UCSC_dm3_ensGene", "TxDb_Hsapiens_UCSC_hg18_knownGene", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Mmusculus_UCSC_mm10_knownGene", "TxDb_Mmusculus_UCSC_mm9_knownGene", "TxDb_Rnorvegicus_UCSC_rn4_ensGene", "chipseq", "ggplot2", "gtools", "reshape2"]
|
|
},
|
|
"ChIPXpress": {
|
|
"name": "ChIPXpress",
|
|
"version": "1.48.0",
|
|
"sha256": "09lkm6s98ip9pw9cwdx8a0z816krr4cgzrcrd7b3d4v4bcywsy7z",
|
|
"depends": ["Biobase", "ChIPXpressData", "GEOquery", "affy", "biganalytics", "bigmemory", "frma"]
|
|
},
|
|
"ChIPanalyser": {
|
|
"name": "ChIPanalyser",
|
|
"version": "1.26.0",
|
|
"sha256": "0jxsy6xd4cr3w5zjjxkziiqpzhg8fld0fh4c3rr34823646ly9ja",
|
|
"depends": ["BSgenome", "BiocManager", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "ROCR", "RcppRoll", "S4Vectors", "rtracklayer"]
|
|
},
|
|
"ChIPexoQual": {
|
|
"name": "ChIPexoQual",
|
|
"version": "1.28.0",
|
|
"sha256": "0y39fpbnykqf5ycpi9q3rw73dkn2ksll7n6nafimxvxsh463d8ky",
|
|
"depends": ["BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "biovizBase", "broom", "data_table", "dplyr", "ggplot2", "hexbin", "rmarkdown", "scales", "viridis"]
|
|
},
|
|
"ChIPpeakAnno": {
|
|
"name": "ChIPpeakAnno",
|
|
"version": "3.38.1",
|
|
"sha256": "11mswd6y4c8l0adrpc4z8hh96dcx59bf70zy572r5lfsj8rz0rgk",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "InteractionSet", "KEGGREST", "RBGL", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VennDiagram", "biomaRt", "data_table", "dplyr", "ensembldb", "ggplot2", "graph", "matrixStats", "multtest", "pwalign", "regioneR", "rtracklayer", "scales", "stringr", "tibble", "tidyr", "universalmotif"]
|
|
},
|
|
"ChIPseeker": {
|
|
"name": "ChIPseeker",
|
|
"version": "1.40.0",
|
|
"sha256": "00iknjk7vgj48vj1pp7l98g7nvc3x495z3jcq5nbvdiff02faj1f",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "aplot", "boot", "dplyr", "enrichplot", "ggplot2", "gplots", "gtools", "magrittr", "plotrix", "rtracklayer", "tibble", "yulab_utils"]
|
|
},
|
|
"ChIPseqR": {
|
|
"name": "ChIPseqR",
|
|
"version": "1.58.0",
|
|
"sha256": "1lgwy6qprrvx1yv04vx567kr5b6mwz46kwafsqldwgqr2by45kgm",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "HilbertVis", "IRanges", "S4Vectors", "ShortRead", "fBasics", "timsac"]
|
|
},
|
|
"ChIPsim": {
|
|
"name": "ChIPsim",
|
|
"version": "1.58.0",
|
|
"sha256": "1cwn6khf8z3ijyjgz0sih24la4fw54ynw9vy0z2hi17vnp4136qi",
|
|
"depends": ["Biostrings", "IRanges", "ShortRead", "XVector"]
|
|
},
|
|
"ChemmineOB": {
|
|
"name": "ChemmineOB",
|
|
"version": "1.42.0",
|
|
"sha256": "17yvmdg16pb1dmx160n6vcgw3sa1yf40f8yzivdyic3sckn4z4bw",
|
|
"depends": ["BH", "BiocGenerics", "Rcpp", "zlibbioc"]
|
|
},
|
|
"ChemmineR": {
|
|
"name": "ChemmineR",
|
|
"version": "3.56.0",
|
|
"sha256": "1252xy33bgjrd4gh4shrgzklgxry2lf67svzxjra5yckf8am0rdc",
|
|
"depends": ["BH", "BiocGenerics", "DBI", "DT", "RCurl", "Rcpp", "base64enc", "digest", "ggplot2", "gridExtra", "jsonlite", "png", "rjson", "rsvg", "stringi"]
|
|
},
|
|
"Chicago": {
|
|
"name": "Chicago",
|
|
"version": "1.32.0",
|
|
"sha256": "05djywxsyfxb26d0clx51q7wmsw3rq56va444d6iy5n7xlhj9m94",
|
|
"depends": ["Delaporte", "Hmisc", "MASS", "data_table", "matrixStats"]
|
|
},
|
|
"ChromHeatMap": {
|
|
"name": "ChromHeatMap",
|
|
"version": "1.58.0",
|
|
"sha256": "1kzrx26rj7wfki6l5g1426p30fch6b92x0y06rg17i3psbmmkmqg",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "annotate", "rtracklayer"]
|
|
},
|
|
"ChromSCape": {
|
|
"name": "ChromSCape",
|
|
"version": "1.14.0",
|
|
"sha256": "12chaigwnqm765p0qlf00s94kkg3dphj2cbqv3vfsyya54hbhfzr",
|
|
"depends": ["BiocParallel", "ConsensusClusterPlus", "DT", "DelayedArray", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "Rsamtools", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "batchelor", "colorRamps", "colourpicker", "coop", "dplyr", "edgeR", "forcats", "fs", "gggenes", "ggplot2", "ggrepel", "gridExtra", "irlba", "jsonlite", "kableExtra", "matrixTests", "msigdbr", "plotly", "qs", "qualV", "rlist", "rtracklayer", "scater", "scran", "shiny", "shinyFiles", "shinyWidgets", "shinycssloaders", "shinydashboard", "shinydashboardPlus", "shinyhelper", "shinyjs", "stringdist", "stringr", "tibble", "tidyr", "umap", "viridis"]
|
|
},
|
|
"CircSeqAlignTk": {
|
|
"name": "CircSeqAlignTk",
|
|
"version": "1.6.0",
|
|
"sha256": "1i9izbf9mzlc7sl2zi5gj4dhxa6mq9kkyysxdq9cj4myhrp9hgwz",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "R_utils", "Rbowtie2", "Rhisat2", "Rsamtools", "S4Vectors", "ShortRead", "dplyr", "ggplot2", "htmltools", "magrittr", "plotly", "rlang", "shiny", "shinyFiles", "shinyjs", "tidyr"]
|
|
},
|
|
"CiteFuse": {
|
|
"name": "CiteFuse",
|
|
"version": "1.16.0",
|
|
"sha256": "1vxynidr7p0khq54d08vzzh2ijaxx1ghm7pxnpg7zppfxvlmsh35",
|
|
"depends": ["Matrix", "Rcpp", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "compositions", "cowplot", "dbscan", "ggplot2", "ggraph", "ggridges", "gridExtra", "igraph", "mixtools", "pheatmap", "randomForest", "reshape2", "rhdf5", "rlang", "scales", "scran", "uwot"]
|
|
},
|
|
"ClassifyR": {
|
|
"name": "ClassifyR",
|
|
"version": "3.8.3",
|
|
"sha256": "1p52jn7zq8kyfksrg74vjy43aw20qc02fw1cbhhb8liqq5bhxak0",
|
|
"depends": ["BiocParallel", "MultiAssayExperiment", "S4Vectors", "dplyr", "genefilter", "generics", "ggplot2", "ggpubr", "ggupset", "ranger", "reshape2", "rlang", "survival", "tidyr"]
|
|
},
|
|
"Clomial": {
|
|
"name": "Clomial",
|
|
"version": "1.40.0",
|
|
"sha256": "17n0s9ppjfcvzb6fyyny61r1hdh4vyf6nf1yjd01vnw8wzyy01f6",
|
|
"depends": ["matrixStats", "permute"]
|
|
},
|
|
"CluMSID": {
|
|
"name": "CluMSID",
|
|
"version": "1.20.0",
|
|
"sha256": "02y79fhzx2hzwj8sjafywm7zqqar48b1m156ld60jjvskrv8ywqf",
|
|
"depends": ["Biobase", "GGally", "MSnbase", "RColorBrewer", "S4Vectors", "ape", "dbscan", "ggplot2", "gplots", "mzR", "network", "plotly", "sna"]
|
|
},
|
|
"ClustAll": {
|
|
"name": "ClustAll",
|
|
"version": "1.0.0",
|
|
"sha256": "13qg0r6lqvzyggkf8gjyxh8d871f483fcrhgbhr4xwpfpwssv8k8",
|
|
"depends": ["ComplexHeatmap", "FactoMineR", "RColorBrewer", "bigstatsr", "circlize", "clValid", "cluster", "doSNOW", "dplyr", "flock", "foreach", "fpc", "ggplot2", "mice", "modeest", "networkD3", "pbapply"]
|
|
},
|
|
"ClustIRR": {
|
|
"name": "ClustIRR",
|
|
"version": "1.2.0",
|
|
"sha256": "1vp3yj16c8irifcvsn0ibvvz8kzbmsf81112cx1c7x6kj132hprx",
|
|
"depends": ["blaster", "igraph", "pwalign", "stringdist", "visNetwork"]
|
|
},
|
|
"ClusterFoldSimilarity": {
|
|
"name": "ClusterFoldSimilarity",
|
|
"version": "1.0.0",
|
|
"sha256": "136bh473b8fznxlrszvxr4w0q6y2cxhhm0xd43fka5wq130x3nr9",
|
|
"depends": ["BiocParallel", "Matrix", "Seurat", "SeuratObject", "SingleCellExperiment", "cowplot", "dplyr", "ggdendro", "ggplot2", "igraph", "reshape2", "scales"]
|
|
},
|
|
"ClusterJudge": {
|
|
"name": "ClusterJudge",
|
|
"version": "1.26.0",
|
|
"sha256": "012n1g47jri9d7cwxwli34xrd5qnv1ghps79l2xin3pbq5fr5h03",
|
|
"depends": ["httr", "infotheo", "jsonlite", "lattice", "latticeExtra"]
|
|
},
|
|
"ClusterSignificance": {
|
|
"name": "ClusterSignificance",
|
|
"version": "1.32.0",
|
|
"sha256": "0n12085247f51n8sp7fic7il73h9k25fkc8sj7wr7nmi81j497ah",
|
|
"depends": ["RColorBrewer", "pracma", "princurve", "scatterplot3d"]
|
|
},
|
|
"CoCiteStats": {
|
|
"name": "CoCiteStats",
|
|
"version": "1.76.0",
|
|
"sha256": "0v3b39nc53c6gzi4ghp5n64jzcx5gv11s8ayaq6f3426732cc2kx",
|
|
"depends": ["AnnotationDbi", "org_Hs_eg_db"]
|
|
},
|
|
"CoGAPS": {
|
|
"name": "CoGAPS",
|
|
"version": "3.24.0",
|
|
"sha256": "1yq625qb5hb0j5jf0r6sxyhwm1zlycv4dkfr3kv2hkapfshirk2b",
|
|
"depends": ["BH", "BiocParallel", "RColorBrewer", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cluster", "dplyr", "fgsea", "forcats", "ggplot2", "gplots", "rhdf5"]
|
|
},
|
|
"Cogito": {
|
|
"name": "Cogito",
|
|
"version": "1.10.0",
|
|
"sha256": "1xin0jxc38qzdh6jfq4pkydsxbyf36pl5b4vipgw145nvll537vr",
|
|
"depends": ["AnnotationDbi", "BiocManager", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "S4Vectors", "TxDb_Mmusculus_UCSC_mm9_knownGene", "entropy", "ggplot2", "jsonlite", "magrittr", "rmarkdown"]
|
|
},
|
|
"ComPrAn": {
|
|
"name": "ComPrAn",
|
|
"version": "1.12.0",
|
|
"sha256": "0nj1h3chqc1pspaj2r5ccxswdfz8zmwaqa1v3nmav54z5l5s70iv",
|
|
"depends": ["DT", "RColorBrewer", "VennDiagram", "data_table", "dplyr", "forcats", "ggplot2", "magrittr", "purrr", "rio", "rlang", "scales", "shiny", "shinydashboard", "shinyjs", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"ComplexHeatmap": {
|
|
"name": "ComplexHeatmap",
|
|
"version": "2.20.0",
|
|
"sha256": "1ppzx850nvvdhz2xiggr43c79w0nr0vmsmmnszasd4flf3jm7v8v",
|
|
"depends": ["GetoptLong", "GlobalOptions", "IRanges", "RColorBrewer", "circlize", "clue", "codetools", "colorspace", "digest", "doParallel", "foreach", "matrixStats", "png"]
|
|
},
|
|
"CompoundDb": {
|
|
"name": "CompoundDb",
|
|
"version": "1.8.0",
|
|
"sha256": "10rg8419ng2zmgn7ydlywxsfqdz8m15rs5wmsicfngagd2nwp5mf",
|
|
"depends": ["AnnotationFilter", "Biobase", "BiocGenerics", "BiocParallel", "ChemmineR", "DBI", "IRanges", "MetaboCoreUtils", "MsCoreUtils", "ProtGenerics", "RSQLite", "S4Vectors", "Spectra", "dbplyr", "dplyr", "jsonlite", "tibble", "xml2"]
|
|
},
|
|
"ConsensusClusterPlus": {
|
|
"name": "ConsensusClusterPlus",
|
|
"version": "1.68.0",
|
|
"sha256": "0y91kz1n3byadk505432cnlj9dfiw521fgb460d6dmly9s0d9yif",
|
|
"depends": ["ALL", "Biobase", "cluster"]
|
|
},
|
|
"CopyNumberPlots": {
|
|
"name": "CopyNumberPlots",
|
|
"version": "1.20.0",
|
|
"sha256": "1b3yschvrwsaj5szrnwbwrxswfxvalfs495q26g1r7w6l26qjv5b",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "SummarizedExperiment", "VariantAnnotation", "cn_mops", "karyoploteR", "regioneR", "rhdf5"]
|
|
},
|
|
"CoreGx": {
|
|
"name": "CoreGx",
|
|
"version": "2.8.0",
|
|
"sha256": "05fyncpqiq08a169rjwyc117wkyckh714z0is2r0g79920i36jas",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "BumpyMatrix", "MatrixGenerics", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "bench", "checkmate", "crayon", "data_table", "glue", "lsa", "piano", "rlang"]
|
|
},
|
|
"Cormotif": {
|
|
"name": "Cormotif",
|
|
"version": "1.50.0",
|
|
"sha256": "0lg52ixswgd7fa9z47sdm1ka49xyllgn04nz21bmv1488abpfm9d",
|
|
"depends": ["affy", "limma"]
|
|
},
|
|
"CoverageView": {
|
|
"name": "CoverageView",
|
|
"version": "1.42.0",
|
|
"sha256": "1wgkn2adcxl6js3cvawhvzpxm3nmnnc16wbnzkrnsnd9l12aasih",
|
|
"depends": ["GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "rtracklayer"]
|
|
},
|
|
"CrispRVariants": {
|
|
"name": "CrispRVariants",
|
|
"version": "1.32.0",
|
|
"sha256": "1nlmznpypfabzrn430hs4k3b8zbw6n1brfy1x2j00bnq3sdd7zgc",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ggplot2", "gridExtra", "reshape2"]
|
|
},
|
|
"CuratedAtlasQueryR": {
|
|
"name": "CuratedAtlasQueryR",
|
|
"version": "1.2.0",
|
|
"sha256": "0b0p4q4nsn1bxxyz61gh9r9bqkwkmjybqrv1ij565kbjnwimbcxj",
|
|
"depends": ["BiocGenerics", "DBI", "HDF5Array", "S4Vectors", "Seurat", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "assertthat", "cli", "dbplyr", "dplyr", "duckdb", "glue", "httr", "purrr", "rlang", "stringr", "tibble"]
|
|
},
|
|
"CyTOFpower": {
|
|
"name": "CyTOFpower",
|
|
"version": "1.10.0",
|
|
"sha256": "158ixl91yfhzik2d22xijarllirbxg33783i5pxixcdz3amp1z56",
|
|
"depends": ["CytoGLMM", "DT", "SummarizedExperiment", "diffcyt", "dplyr", "ggplot2", "magrittr", "rlang", "shiny", "shinyFeedback", "shinyMatrix", "shinyjs", "tibble", "tidyr"]
|
|
},
|
|
"CytoDx": {
|
|
"name": "CytoDx",
|
|
"version": "1.24.0",
|
|
"sha256": "0lj5j7dzsd643mi0056gbrdbajcmy40bwy4rcicq75lvjc3cxlpd",
|
|
"depends": ["doParallel", "dplyr", "flowCore", "glmnet", "rpart", "rpart_plot"]
|
|
},
|
|
"CytoGLMM": {
|
|
"name": "CytoGLMM",
|
|
"version": "1.12.0",
|
|
"sha256": "1dfrp97mx93fdx4mrd4p8w2v37hq9h5b829l75vxxpmx2xqv4c7a",
|
|
"depends": ["BiocParallel", "MASS", "Matrix", "RColorBrewer", "caret", "cowplot", "doParallel", "dplyr", "factoextra", "flexmix", "ggplot2", "ggrepel", "logging", "magrittr", "mbest", "pheatmap", "rlang", "stringr", "strucchange", "tibble", "tidyr"]
|
|
},
|
|
"CytoMDS": {
|
|
"name": "CytoMDS",
|
|
"version": "1.0.0",
|
|
"sha256": "050zzhhiy8gckism9s20l1kb1mhfgkd9prci0aqg23fzlv6d6inm",
|
|
"depends": ["BiocParallel", "CytoPipeline", "flowCore", "ggforce", "ggplot2", "ggrepel", "patchwork", "pracma", "reshape2", "rlang", "smacof", "transport", "withr"]
|
|
},
|
|
"CytoML": {
|
|
"name": "CytoML",
|
|
"version": "2.16.0",
|
|
"sha256": "11kflx3yahl7xjl6x2rgpd4hl5y69qgarzhalmz4qdci7b7ln7kr",
|
|
"depends": ["BH", "Biobase", "RBGL", "RProtoBufLib", "Rgraphviz", "Rhdf5lib", "XML", "cpp11", "cytolib", "data_table", "dplyr", "flowCore", "flowWorkspace", "ggcyto", "graph", "jsonlite", "openCyto", "tibble", "yaml"]
|
|
},
|
|
"CytoPipeline": {
|
|
"name": "CytoPipeline",
|
|
"version": "1.4.0",
|
|
"sha256": "1c8w2v8990z8kp7wxc69ildhj0v5g3zx05dzyhb16nrlnb7bfcc4",
|
|
"depends": ["BiocFileCache", "BiocParallel", "PeacoQC", "diagram", "flowAI", "flowCore", "ggcyto", "ggplot2", "jsonlite", "rlang", "scales", "withr"]
|
|
},
|
|
"CytoPipelineGUI": {
|
|
"name": "CytoPipelineGUI",
|
|
"version": "1.2.0",
|
|
"sha256": "1xr7c8gcccxz8zl74amh35r2va3g58c2lwvl1j9py5g8ipmwprzj",
|
|
"depends": ["CytoPipeline", "flowCore", "ggplot2", "plotly", "shiny"]
|
|
},
|
|
"DAMEfinder": {
|
|
"name": "DAMEfinder",
|
|
"version": "1.16.0",
|
|
"sha256": "1ffqa7a3a0f3m58j6al2hd7aa8bamv4z170y4yn1vr1f8jrb7kq5",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "bumphunter", "cowplot", "ggplot2", "limma", "plyr", "readr", "reshape2", "stringr"]
|
|
},
|
|
"DAPAR": {
|
|
"name": "DAPAR",
|
|
"version": "1.36.2",
|
|
"sha256": "1800c6g39gg9q43v1s5r13qm4aj53x18qzbbyz75fpwrril967gr",
|
|
"depends": ["Biobase", "DAPARdata", "MSnbase", "foreach", "highcharter"]
|
|
},
|
|
"DART": {
|
|
"name": "DART",
|
|
"version": "1.52.0",
|
|
"sha256": "1zqzcssiibb9cl1iv6rzfmwlcms2llina41j5lkx0i9s8xmrqi06",
|
|
"depends": ["igraph"]
|
|
},
|
|
"DCATS": {
|
|
"name": "DCATS",
|
|
"version": "1.2.0",
|
|
"sha256": "1hf275h40d5ggya58malxbrmzqi5gi04w847gc567qzpzs1bqfp2",
|
|
"depends": ["MCMCpack", "aod", "e1071", "matrixStats", "robustbase"]
|
|
},
|
|
"DECIPHER": {
|
|
"name": "DECIPHER",
|
|
"version": "3.0.0",
|
|
"sha256": "1bgzl3sy4l5xfgxrkw8z1dvygkn2dgcl2fl9ah13ggs8hc9h9nlm",
|
|
"depends": ["Biostrings", "DBI", "IRanges", "S4Vectors", "XVector"]
|
|
},
|
|
"DEFormats": {
|
|
"name": "DEFormats",
|
|
"version": "1.32.0",
|
|
"sha256": "0sxflb9b148gkylxpfmmk9pmh3gblc4wp6594n0w4a711xrv1jr9",
|
|
"depends": ["DESeq2", "GenomicRanges", "S4Vectors", "SummarizedExperiment", "checkmate", "data_table", "edgeR"]
|
|
},
|
|
"DEGraph": {
|
|
"name": "DEGraph",
|
|
"version": "1.56.0",
|
|
"sha256": "0pxh6kyi4blz039yw7vzi9dj4jpzsbv0p2fw44fz2q2pzr98g2m9",
|
|
"depends": ["KEGGgraph", "NCIgraph", "RBGL", "R_methodsS3", "R_utils", "Rgraphviz", "graph", "lattice", "mvtnorm", "rrcov"]
|
|
},
|
|
"DEGreport": {
|
|
"name": "DEGreport",
|
|
"version": "1.40.1",
|
|
"sha256": "0z5wzdixw6pyfd72drh54aalmp9nd5p1xi5vn53d58w78hrb757p",
|
|
"depends": ["Biobase", "BiocGenerics", "ComplexHeatmap", "ConsensusClusterPlus", "DESeq2", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "broom", "circlize", "cluster", "cowplot", "dendextend", "dplyr", "edgeR", "ggdendro", "ggplot2", "ggrepel", "knitr", "logging", "magrittr", "psych", "reshape", "rlang", "scales", "stringi", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"DEGseq": {
|
|
"name": "DEGseq",
|
|
"version": "1.58.0",
|
|
"sha256": "1ia2fkd1v0f8mlfrpdv3h0n34y5pg1s8xqf1w5rcmh2md4icm670",
|
|
"depends": ["qvalue"]
|
|
},
|
|
"DELocal": {
|
|
"name": "DELocal",
|
|
"version": "1.4.0",
|
|
"sha256": "0xxlf90h1zi97k5rsbv41l88yq7qgfmd1rrmyipfjzhbl3l2spaf",
|
|
"depends": ["DESeq2", "SummarizedExperiment", "dplyr", "ggplot2", "limma", "matrixStats", "reshape2"]
|
|
},
|
|
"DEP": {
|
|
"name": "DEP",
|
|
"version": "1.26.0",
|
|
"sha256": "1z8ymvghbbr9igcdzqwaz62r8lk07c2b1gnjbk504cxrhyy301jx",
|
|
"depends": ["ComplexHeatmap", "DT", "MSnbase", "RColorBrewer", "SummarizedExperiment", "assertthat", "circlize", "cluster", "dplyr", "fdrtool", "ggplot2", "ggrepel", "gridExtra", "imputeLCMD", "limma", "purrr", "readr", "rmarkdown", "shiny", "shinydashboard", "tibble", "tidyr", "vsn"]
|
|
},
|
|
"DEScan2": {
|
|
"name": "DEScan2",
|
|
"version": "1.24.0",
|
|
"sha256": "15ncl95mf7mxazic0ig15isnblyj59dcr2xjv05dcwxc11wz1fr0",
|
|
"depends": ["BiocGenerics", "BiocParallel", "ChIPpeakAnno", "DelayedArray", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rcpp", "RcppArmadillo", "S4Vectors", "SummarizedExperiment", "data_table", "glue", "plyr", "rtracklayer"]
|
|
},
|
|
"DESeq2": {
|
|
"name": "DESeq2",
|
|
"version": "1.44.0",
|
|
"sha256": "1j7ivkxbc75hzxhl9d97w8vamrmxf6527n7841i1j9n6s7hz1cdn",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "GenomicRanges", "IRanges", "MatrixGenerics", "Rcpp", "RcppArmadillo", "S4Vectors", "SummarizedExperiment", "ggplot2", "locfit", "matrixStats"]
|
|
},
|
|
"DESpace": {
|
|
"name": "DESpace",
|
|
"version": "1.4.0",
|
|
"sha256": "0lx3igbclpxx6jjvsagwjdakg9iy325xhkw7iixj8m6b8s4dkmkp",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Matrix", "S4Vectors", "SpatialExperiment", "SummarizedExperiment", "assertthat", "cowplot", "data_table", "dplyr", "edgeR", "ggforce", "ggnewscale", "ggplot2", "ggpubr", "limma", "patchwork", "scales"]
|
|
},
|
|
"DEWSeq": {
|
|
"name": "DEWSeq",
|
|
"version": "1.18.0",
|
|
"sha256": "034p1rxc1w758zpy920sgpcfr0dmhkfqrcximqkary0n0m6n95i0",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DESeq2", "GenomeInfoDb", "GenomicRanges", "R_utils", "S4Vectors", "SummarizedExperiment", "data_table"]
|
|
},
|
|
"DEXSeq": {
|
|
"name": "DEXSeq",
|
|
"version": "1.50.0",
|
|
"sha256": "13y3fhgvf7438yjv6qm28n8f42w4wgkklc0q229ypns1gfh54524",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocParallel", "DESeq2", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "biomaRt", "genefilter", "geneplotter", "hwriter", "statmod", "stringr"]
|
|
},
|
|
"DEqMS": {
|
|
"name": "DEqMS",
|
|
"version": "1.22.0",
|
|
"sha256": "0fiiyrzvy6nkk8xpxdjmar0fpjs9ardzplb993xxyi1n8vv0092l",
|
|
"depends": ["ggplot2", "limma", "matrixStats"]
|
|
},
|
|
"DEsingle": {
|
|
"name": "DEsingle",
|
|
"version": "1.24.0",
|
|
"sha256": "06bnvyivj4bx5l2zvwjj4za2hpshsifsa83lsi9fpgdwhn3526kd",
|
|
"depends": ["BiocParallel", "MASS", "Matrix", "VGAM", "bbmle", "gamlss", "maxLik", "pscl"]
|
|
},
|
|
"DEsubs": {
|
|
"name": "DEsubs",
|
|
"version": "1.30.0",
|
|
"sha256": "0p3vkm6116zl157nivwnm68svwm9h9cp9cplz9hncfywcii9a579",
|
|
"depends": ["DESeq2", "EBSeq", "Matrix", "NBPSeq", "RBGL", "circlize", "edgeR", "ggplot2", "graph", "igraph", "jsonlite", "limma", "locfit", "pheatmap"]
|
|
},
|
|
"DExMA": {
|
|
"name": "DExMA",
|
|
"version": "1.12.0",
|
|
"sha256": "1mm45hvb3l1xvikgy25jxg9ppl71ha2sn4vh9qpf7wfr770hif3r",
|
|
"depends": ["Biobase", "DExMAdata", "GEOquery", "RColorBrewer", "bnstruct", "impute", "limma", "pheatmap", "plyr", "scales", "snpStats", "sva", "swamp"]
|
|
},
|
|
"DFP": {
|
|
"name": "DFP",
|
|
"version": "1.62.0",
|
|
"sha256": "1rjc8a03pga0hyb663lnfkwrwfw3pipwsb11gn2aj3vx4wyf1gp1",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"DIAlignR": {
|
|
"name": "DIAlignR",
|
|
"version": "2.12.0",
|
|
"sha256": "19zgjnd9sjxx09pcf50fl3w4fmd1gj8g765x114l0cqcpk9qfmm5",
|
|
"depends": ["DBI", "RMSNumpress", "RSQLite", "Rcpp", "RcppEigen", "ape", "bit64", "data_table", "dplyr", "ggplot2", "magrittr", "mzR", "phangorn", "pracma", "reticulate", "rlang", "signal", "tidyr", "zoo"]
|
|
},
|
|
"DMCFB": {
|
|
"name": "DMCFB",
|
|
"version": "1.18.0",
|
|
"sha256": "0hpf7qkjy7hms4bpqb6y15gwkfah6p69icwab2vwsgmz8w94c44a",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "SummarizedExperiment", "arm", "benchmarkme", "data_table", "fastDummies", "matrixStats", "rtracklayer", "speedglm", "tibble"]
|
|
},
|
|
"DMCHMM": {
|
|
"name": "DMCHMM",
|
|
"version": "1.26.0",
|
|
"sha256": "0rv1v08nf7vbxci28j68sjxq77lj0swis26ryxp156alr397jfby",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "calibrate", "fdrtool", "multcomp", "rtracklayer"]
|
|
},
|
|
"DMRScan": {
|
|
"name": "DMRScan",
|
|
"version": "1.26.0",
|
|
"sha256": "0j68kxzmn3kskqy88j1dqznigiw1rb3b14hwnvcmyckmyhiysx73",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "MASS", "Matrix", "RcppRoll", "mvtnorm"]
|
|
},
|
|
"DMRcaller": {
|
|
"name": "DMRcaller",
|
|
"version": "1.36.0",
|
|
"sha256": "0r9xm77y6xs4mginwfshnpvn2l8phpag35a8mcasj63aqs05js2h",
|
|
"depends": ["GenomicRanges", "IRanges", "Rcpp", "RcppRoll", "S4Vectors", "betareg"]
|
|
},
|
|
"DMRcate": {
|
|
"name": "DMRcate",
|
|
"version": "3.0.5",
|
|
"sha256": "1m5ilcpknzxd3cdk0kyvqqsahshlwxi7xpscigr4w7a83p775vqc",
|
|
"depends": ["AnnotationHub", "ExperimentHub", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "S4Vectors", "SummarizedExperiment", "biomaRt", "bsseq", "edgeR", "limma", "minfi", "missMethyl", "plyr"]
|
|
},
|
|
"DNABarcodeCompatibility": {
|
|
"name": "DNABarcodeCompatibility",
|
|
"version": "1.20.0",
|
|
"sha256": "0iiy81svi1nnghaimnc5hs1prrk1z5kgv1bd5naysb8fpagd0jgl",
|
|
"depends": ["DNABarcodes", "dplyr", "numbers", "purrr", "stringr", "tidyr"]
|
|
},
|
|
"DNABarcodes": {
|
|
"name": "DNABarcodes",
|
|
"version": "1.34.0",
|
|
"sha256": "0vxxg6fkgck640p9plk4vx3d05794s3xgxksv819d2wicvyby4hk",
|
|
"depends": ["BH", "Matrix", "Rcpp"]
|
|
},
|
|
"DNAcopy": {
|
|
"name": "DNAcopy",
|
|
"version": "1.78.0",
|
|
"sha256": "1q4s6rb6iv9cmfkjymgdyb4h3z0x0kzzd2bvfdjrzzzza6vhjpxl",
|
|
"depends": []
|
|
},
|
|
"DNAfusion": {
|
|
"name": "DNAfusion",
|
|
"version": "1.6.0",
|
|
"sha256": "1rdm6x8dzk02ggx33bx9mgcq1p36ryysyxha333j05aysn2az2x0",
|
|
"depends": ["BiocBaseUtils", "BiocGenerics", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "TxDb_Hsapiens_UCSC_hg38_knownGene", "bamsignals"]
|
|
},
|
|
"DNAshapeR": {
|
|
"name": "DNAshapeR",
|
|
"version": "1.32.0",
|
|
"sha256": "0s5z3bh5dlym810rkb9i3bfxfap91qh7hj070i1nqnf4g2vamx9g",
|
|
"depends": ["Biostrings", "GenomicRanges", "Rcpp", "fields"]
|
|
},
|
|
"DOSE": {
|
|
"name": "DOSE",
|
|
"version": "3.30.2",
|
|
"sha256": "1jf6l0ngmdz1lca2rcjg3rhi9qdrv1pzmn93wa09svi4glsfhy1h",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "GOSemSim", "HDO_db", "fgsea", "ggplot2", "qvalue", "reshape2", "yulab_utils"]
|
|
},
|
|
"DRIMSeq": {
|
|
"name": "DRIMSeq",
|
|
"version": "1.32.0",
|
|
"sha256": "10skx3n3r9vp1p1499ddccgabi7q3cy1dpi5pbp4ap0gff5ika5x",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "edgeR", "ggplot2", "limma", "reshape2"]
|
|
},
|
|
"DSS": {
|
|
"name": "DSS",
|
|
"version": "2.52.0",
|
|
"sha256": "1y9xg6ic3a03xswyfvyxdhnd7ngkljc96bm5fry4ni6kpa77bkv8",
|
|
"depends": ["Biobase", "BiocParallel", "bsseq"]
|
|
},
|
|
"DTA": {
|
|
"name": "DTA",
|
|
"version": "2.50.0",
|
|
"sha256": "0njm0v10s31sx7v35kdv44815yy6k9h814s9zn98ld5qcrzn2q77",
|
|
"depends": ["LSD", "scatterplot3d"]
|
|
},
|
|
"DaMiRseq": {
|
|
"name": "DaMiRseq",
|
|
"version": "2.16.0",
|
|
"sha256": "029idkjbha250f8wgwy6sjnjvlxqs0lkwal066693mc2h40rql11",
|
|
"depends": ["DESeq2", "EDASeq", "FSelector", "FactoMineR", "Hmisc", "MASS", "RColorBrewer", "RSNNS", "SummarizedExperiment", "arm", "caret", "corrplot", "e1071", "edgeR", "ggplot2", "ineq", "kknn", "limma", "lubridate", "pheatmap", "pls", "plsVarSel", "plyr", "randomForest", "reshape2", "sva"]
|
|
},
|
|
"Damsel": {
|
|
"name": "Damsel",
|
|
"version": "1.0.0",
|
|
"sha256": "0n60wkrwk1npg1361x5plam6rabmqzlxdcij1qf5q351wfkqlp8y",
|
|
"depends": ["AnnotationDbi", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Rsamtools", "Rsubread", "dplyr", "edgeR", "ggbio", "ggplot2", "goseq", "magrittr", "patchwork", "plyranges", "reshape2", "rlang", "stringr", "tidyr"]
|
|
},
|
|
"DeMAND": {
|
|
"name": "DeMAND",
|
|
"version": "1.34.0",
|
|
"sha256": "0pdqgb4fsqzwhan1hwb4hi326yh5xhxwqkdqlffzhgfkp4lwi1cb",
|
|
"depends": ["KernSmooth"]
|
|
},
|
|
"DeMixT": {
|
|
"name": "DeMixT",
|
|
"version": "1.20.0",
|
|
"sha256": "1hnaaidmflyh768pc1ivlq8rfjh5vrwycc0r6k1cyiinm53vknns",
|
|
"depends": ["DSS", "KernSmooth", "Rcpp", "SummarizedExperiment", "base64enc", "dendextend", "ggplot2", "knitr", "matrixStats", "matrixcalc", "psych", "rmarkdown", "sva", "truncdist"]
|
|
},
|
|
"DeProViR": {
|
|
"name": "DeProViR",
|
|
"version": "1.0.0",
|
|
"sha256": "0m1nhzq5kl6jyi3d8fzb77iplzc4p85v7lj5q7i7125kjv6bycsm",
|
|
"depends": ["BiocFileCache", "PRROC", "caret", "data_table", "dplyr", "fmsb", "ggplot2", "keras", "pROC", "readr"]
|
|
},
|
|
"DeconRNASeq": {
|
|
"name": "DeconRNASeq",
|
|
"version": "1.46.0",
|
|
"sha256": "0hwvfsc48dakh3nvz60i92yciz2m5my9w57kzpyj4jyk92cs181g",
|
|
"depends": ["ggplot2", "limSolve", "pcaMethods"]
|
|
},
|
|
"DeepPINCS": {
|
|
"name": "DeepPINCS",
|
|
"version": "1.12.0",
|
|
"sha256": "148klzaqa01yns02x38vnd3gn46ayi7p0z2f2s7m95ralby95qm0",
|
|
"depends": ["CatEncoders", "PRROC", "keras", "matlab", "purrr", "rcdk", "reticulate", "stringdist", "tensorflow", "tokenizers", "ttgsea", "webchem"]
|
|
},
|
|
"DegCre": {
|
|
"name": "DegCre",
|
|
"version": "1.0.0",
|
|
"sha256": "1wv2h8x45qsj8p4awwb22z1ilymmkrgmrhsl2y7l7dx13qh5l3dr",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "S4Vectors", "plotgardener"]
|
|
},
|
|
"DegNorm": {
|
|
"name": "DegNorm",
|
|
"version": "1.14.0",
|
|
"sha256": "15bh4x6rnqil3gcwialcpnqq5inznmjhzf0f4r54xylril0ad268",
|
|
"depends": ["GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rcpp", "RcppArmadillo", "Rsamtools", "S4Vectors", "data_table", "doParallel", "foreach", "ggplot2", "heatmaply", "plotly", "plyr", "txdbmaker", "viridis"]
|
|
},
|
|
"DelayedArray": {
|
|
"name": "DelayedArray",
|
|
"version": "0.30.1",
|
|
"sha256": "0n6pparz2fg8wgrgcwciibqz3iyrnlmk5hdvnzjppcraxanz8sm6",
|
|
"depends": ["BiocGenerics", "IRanges", "Matrix", "MatrixGenerics", "S4Arrays", "S4Vectors", "SparseArray"]
|
|
},
|
|
"DelayedDataFrame": {
|
|
"name": "DelayedDataFrame",
|
|
"version": "1.20.0",
|
|
"sha256": "1j9akl3njqnrf6klccgiiss941l1k49vsrsrhrqjbg8f5vzg5i9w",
|
|
"depends": ["BiocGenerics", "DelayedArray", "S4Vectors"]
|
|
},
|
|
"DelayedMatrixStats": {
|
|
"name": "DelayedMatrixStats",
|
|
"version": "1.26.0",
|
|
"sha256": "1cqf6y0f18469v1jgfvdjnskkc89i3sfg79axxqcwa33mfjj736s",
|
|
"depends": ["DelayedArray", "IRanges", "Matrix", "MatrixGenerics", "S4Vectors", "sparseMatrixStats"]
|
|
},
|
|
"DelayedRandomArray": {
|
|
"name": "DelayedRandomArray",
|
|
"version": "1.12.0",
|
|
"sha256": "0lzx0p9hq4vd6w1rvlqd98b3rvfs1zzgvqm21s99vlmdc3db5pqn",
|
|
"depends": ["BH", "DelayedArray", "Rcpp", "dqrng"]
|
|
},
|
|
"DelayedTensor": {
|
|
"name": "DelayedTensor",
|
|
"version": "1.10.0",
|
|
"sha256": "1f8qpi3xfhgng7zjm7zdxmd32ynri2mavxs6ffqg1izclrzqsb5q",
|
|
"depends": ["BiocSingular", "DelayedArray", "DelayedRandomArray", "HDF5Array", "Matrix", "einsum", "irlba", "rTensor"]
|
|
},
|
|
"DepInfeR": {
|
|
"name": "DepInfeR",
|
|
"version": "1.8.0",
|
|
"sha256": "0akyxyijjp4hwy1cs00nnahcnsbrp5j6gnrahwd2wrlx2dr0zxrm",
|
|
"depends": ["BiocParallel", "glmnet", "matrixStats"]
|
|
},
|
|
"DepecheR": {
|
|
"name": "DepecheR",
|
|
"version": "1.20.0",
|
|
"sha256": "15lpn1p2p28lhmzi7svszr0p1zkyaivi69q8pxcrv4lvips38hk4",
|
|
"depends": ["ClusterR", "FNN", "MASS", "Rcpp", "RcppEigen", "beanplot", "collapse", "doSNOW", "dplyr", "foreach", "ggplot2", "gmodels", "gplots", "matrixStats", "mixOmics", "moments", "reshape2", "robustbase", "viridis"]
|
|
},
|
|
"DiffBind": {
|
|
"name": "DiffBind",
|
|
"version": "3.14.0",
|
|
"sha256": "1sr0zy5pbjmjzkwkpjmr26k4dcf3f3kxsl7z2nqw0p0a14rh57pm",
|
|
"depends": ["BiocParallel", "DESeq2", "GenomicAlignments", "GenomicRanges", "GreyListChIP", "IRanges", "RColorBrewer", "Rcpp", "Rhtslib", "Rsamtools", "S4Vectors", "SummarizedExperiment", "amap", "apeglm", "ashr", "dplyr", "ggplot2", "ggrepel", "gplots", "lattice", "limma", "locfit", "systemPipeR"]
|
|
},
|
|
"DiffLogo": {
|
|
"name": "DiffLogo",
|
|
"version": "2.28.0",
|
|
"sha256": "00c75krimzaf8z35dyr9dq7vrh06ihb8fikyd61kybaakz6c4waj",
|
|
"depends": ["cba"]
|
|
},
|
|
"DifferentialRegulation": {
|
|
"name": "DifferentialRegulation",
|
|
"version": "2.2.1",
|
|
"sha256": "170sfmm11vcgwi4wak6y699cnmbqiw4p8bipb5k7qzqaww99541s",
|
|
"depends": ["BANDITS", "MASS", "Matrix", "Rcpp", "RcppArmadillo", "SingleCellExperiment", "SummarizedExperiment", "data_table", "doParallel", "doRNG", "foreach", "ggplot2", "gridExtra", "tximport"]
|
|
},
|
|
"Dino": {
|
|
"name": "Dino",
|
|
"version": "1.10.0",
|
|
"sha256": "0nfn61i6iczg3k8brfajddlxavskjzm0x56qliy81f76sjb3njr3",
|
|
"depends": ["BiocParallel", "BiocSingular", "Matrix", "S4Vectors", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "matrixStats", "scran"]
|
|
},
|
|
"Director": {
|
|
"name": "Director",
|
|
"version": "1.30.0",
|
|
"sha256": "1lm6qdmk1a4c74sph9n4vj174x9c41489ljrw7hxwrwifpjp4phd",
|
|
"depends": ["htmltools"]
|
|
},
|
|
"DirichletMultinomial": {
|
|
"name": "DirichletMultinomial",
|
|
"version": "1.46.0",
|
|
"sha256": "0djd84vnf4skjr6m25ykqrvwa37lgs5r5aw9md81ykaqmi40szqb",
|
|
"depends": ["BiocGenerics", "IRanges", "S4Vectors"]
|
|
},
|
|
"DiscoRhythm": {
|
|
"name": "DiscoRhythm",
|
|
"version": "1.20.0",
|
|
"sha256": "14scrzsx36j6rbnav5hn8xykhwyswr85kkvdvg66g4xdwc3d6v7b",
|
|
"depends": ["BiocGenerics", "BiocStyle", "DT", "MetaCycle", "S4Vectors", "SummarizedExperiment", "UpSetR", "VennDiagram", "broom", "data_table", "dplyr", "ggExtra", "ggplot2", "gridExtra", "heatmaply", "kableExtra", "knitr", "magick", "matrixStats", "matrixTests", "plotly", "reshape2", "rmarkdown", "shiny", "shinyBS", "shinycssloaders", "shinydashboard", "shinyjs", "viridis", "zip"]
|
|
},
|
|
"DominoEffect": {
|
|
"name": "DominoEffect",
|
|
"version": "1.24.0",
|
|
"sha256": "1lwvji698xi63rx4i3g73xkv4k53m3gbjgkbcmxgm0gagn1mrczl",
|
|
"depends": ["AnnotationDbi", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "SummarizedExperiment", "VariantAnnotation", "biomaRt", "data_table", "pwalign"]
|
|
},
|
|
"Doscheda": {
|
|
"name": "Doscheda",
|
|
"version": "1.26.0",
|
|
"sha256": "0iqcsyk4y8wkhf9s84hzm4rdmyg7bb5db7frm6xbxlsydfpzqy3l",
|
|
"depends": ["DT", "affy", "calibrate", "corrgram", "drc", "ggplot2", "gridExtra", "httr", "jsonlite", "limma", "matrixStats", "prodlim", "readxl", "reshape2", "shiny", "shinydashboard", "stringr", "vsn"]
|
|
},
|
|
"DriverNet": {
|
|
"name": "DriverNet",
|
|
"version": "1.44.0",
|
|
"sha256": "0jj9vrbni8zc56pbs2c7nv6yks23nrwzqz757vb7a8lxcd3sziwr",
|
|
"depends": []
|
|
},
|
|
"DropletUtils": {
|
|
"name": "DropletUtils",
|
|
"version": "1.24.0",
|
|
"sha256": "01y88cnii02sn1jgyvvmbx8j60qbzqyznqfxzv06yi4y0xj37klg",
|
|
"depends": ["BH", "BiocGenerics", "BiocParallel", "DelayedArray", "DelayedMatrixStats", "GenomicRanges", "HDF5Array", "IRanges", "Matrix", "R_utils", "Rcpp", "Rhdf5lib", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "dqrng", "edgeR", "rhdf5", "scuttle"]
|
|
},
|
|
"DrugVsDisease": {
|
|
"name": "DrugVsDisease",
|
|
"version": "2.46.0",
|
|
"sha256": "1bzjjvv94hiyh7m0iqrvgl6lgxzz6s8jy5ry1mj2w821ivhz1gpy",
|
|
"depends": ["ArrayExpress", "BiocGenerics", "DrugVsDiseasedata", "GEOquery", "RUnit", "affy", "annotate", "biomaRt", "cMap2data", "hgu133a2_db", "hgu133a_db", "hgu133plus2_db", "limma", "qvalue", "xtable"]
|
|
},
|
|
"Dune": {
|
|
"name": "Dune",
|
|
"version": "1.16.0",
|
|
"sha256": "0fiqbh9ywip75sxy54y76nbbqg6maji40d189qxarckdlmj09m7z",
|
|
"depends": ["BiocParallel", "RColorBrewer", "SummarizedExperiment", "aricode", "dplyr", "gganimate", "ggplot2", "magrittr", "purrr", "tidyr"]
|
|
},
|
|
"DynDoc": {
|
|
"name": "DynDoc",
|
|
"version": "1.82.0",
|
|
"sha256": "174jfdyq7g7mvn7wvmdkf36n0n969aqsg9bwd1nk6a5nw1khm7js",
|
|
"depends": []
|
|
},
|
|
"EBImage": {
|
|
"name": "EBImage",
|
|
"version": "4.46.0",
|
|
"sha256": "0qaafn9l9lwrj0yph74g39pghjpg009qz7by64frxg1q0j7ksd2w",
|
|
"depends": ["BiocGenerics", "RCurl", "abind", "fftwtools", "htmltools", "htmlwidgets", "jpeg", "locfit", "png", "tiff"]
|
|
},
|
|
"EBSEA": {
|
|
"name": "EBSEA",
|
|
"version": "1.32.0",
|
|
"sha256": "1pms8d49pcr4ngcy79m556vh4h2xbscwkzcabvy5xr8l22biv84b",
|
|
"depends": ["DESeq2", "EmpiricalBrownsMethod"]
|
|
},
|
|
"EBSeq": {
|
|
"name": "EBSeq",
|
|
"version": "2.2.0",
|
|
"sha256": "1lbvrw6fcjhrm6v71lmnphv4hbdh03czgx3822ckdk6xrvyh54cf",
|
|
"depends": ["BH", "Rcpp", "RcppEigen", "blockmodeling", "gplots", "testthat"]
|
|
},
|
|
"EBarrays": {
|
|
"name": "EBarrays",
|
|
"version": "2.68.0",
|
|
"sha256": "17ym1y90bz85afanggdjf91a49lz89qmmi2kyhxga0cw056lkdz0",
|
|
"depends": ["Biobase", "cluster", "lattice"]
|
|
},
|
|
"EBcoexpress": {
|
|
"name": "EBcoexpress",
|
|
"version": "1.48.0",
|
|
"sha256": "0sfakxc2zz38w6krss8jqzkpvpmg8pj6xxc24775jhndv3aqjih1",
|
|
"depends": ["EBarrays", "mclust", "minqa"]
|
|
},
|
|
"EDASeq": {
|
|
"name": "EDASeq",
|
|
"version": "2.38.0",
|
|
"sha256": "18h9zlah21lghy1sjpnzy6lddmff8vh3raxnqi15v00za9azk8yq",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocManager", "Biostrings", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "ShortRead", "aroma_light", "biomaRt"]
|
|
},
|
|
"EDIRquery": {
|
|
"name": "EDIRquery",
|
|
"version": "1.4.0",
|
|
"sha256": "154bnyjlvds909y95rmbd8x32rkhqfpkhb6vjbqhm56z4c9z33x7",
|
|
"depends": ["GenomicRanges", "InteractionSet", "readr", "tibble", "tictoc"]
|
|
},
|
|
"EGAD": {
|
|
"name": "EGAD",
|
|
"version": "1.32.0",
|
|
"sha256": "0y1fwvqmrvv8v7i8ncqaxbmpflaybbgnjn09qqzpmsavfk10wvgh",
|
|
"depends": ["Biobase", "GEOquery", "MASS", "RColorBrewer", "RCurl", "gplots", "igraph", "impute", "limma", "plyr", "zoo"]
|
|
},
|
|
"EGSEA": {
|
|
"name": "EGSEA",
|
|
"version": "1.32.0",
|
|
"sha256": "1fpa26l0jimy1b36cw71abgmn1zj10j4lkpc5g4k09kc74nmivqi",
|
|
"depends": ["AnnotationDbi", "Biobase", "DT", "EGSEAdata", "GSVA", "HTMLUtils", "PADOG", "RColorBrewer", "edgeR", "gage", "ggplot2", "globaltest", "gplots", "htmlwidgets", "hwriter", "limma", "metap", "org_Hs_eg_db", "org_Mm_eg_db", "org_Rn_eg_db", "pathview", "plotly", "safe", "stringi", "topGO"]
|
|
},
|
|
"ELMER": {
|
|
"name": "ELMER",
|
|
"version": "2.28.0",
|
|
"sha256": "012vxjagm3m9v98ds89xfwncnxzhwqlk7yigadnw73vg5r8ix6zd",
|
|
"depends": ["ComplexHeatmap", "DelayedArray", "ELMER_data", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "Matrix", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "TCGAbiolinks", "biomaRt", "circlize", "doParallel", "downloader", "dplyr", "ggplot2", "ggpubr", "ggrepel", "gridExtra", "lattice", "magrittr", "plotly", "plyr", "progress", "purrr", "readr", "reshape", "reshape2", "rmarkdown", "rtracklayer", "rvest", "scales", "stringr", "tibble", "tidyr", "xml2"]
|
|
},
|
|
"EMDomics": {
|
|
"name": "EMDomics",
|
|
"version": "2.34.0",
|
|
"sha256": "0lyaia1ngsw909avldz1pmly16v36ldqq1r7jz23fzmqa63ch87r",
|
|
"depends": ["BiocParallel", "CDFt", "emdist", "ggplot2", "matrixStats", "preprocessCore"]
|
|
},
|
|
"ENmix": {
|
|
"name": "ENmix",
|
|
"version": "1.40.2",
|
|
"sha256": "1x8rzdzymibypb65axx3sgxsgrj5d1fldj9j70acvg46lqhmq8f2",
|
|
"depends": ["AnnotationHub", "Biobase", "ExperimentHub", "IRanges", "RPMM", "S4Vectors", "SummarizedExperiment", "doParallel", "dynamicTreeCut", "foreach", "genefilter", "geneplotter", "gplots", "gtools", "illuminaio", "impute", "irlba", "matrixStats", "minfi", "quadprog"]
|
|
},
|
|
"ERSSA": {
|
|
"name": "ERSSA",
|
|
"version": "1.22.0",
|
|
"sha256": "1bm64ydz0qlfm6vdrhqr699sc0njm6npdq0pmh2xb3w6iwh9dy92",
|
|
"depends": ["BiocParallel", "DESeq2", "RColorBrewer", "apeglm", "edgeR", "ggplot2", "plyr"]
|
|
},
|
|
"EWCE": {
|
|
"name": "EWCE",
|
|
"version": "1.12.0",
|
|
"sha256": "19j1bl179kcih54ry9m4pgl9qvylkxyjaqk6pzna9wm5dpzdqnsl",
|
|
"depends": ["BiocParallel", "DelayedArray", "HGNChelper", "Matrix", "RNOmni", "SingleCellExperiment", "SummarizedExperiment", "data_table", "dplyr", "ewceData", "ggplot2", "limma", "orthogene", "reshape2", "stringr"]
|
|
},
|
|
"EasyCellType": {
|
|
"name": "EasyCellType",
|
|
"version": "1.6.0",
|
|
"sha256": "0czz6yy7534xzfr28kp18hy47sdzsfkzpd9hz1jx5rfgl4sg6hbn",
|
|
"depends": ["AnnotationDbi", "BiocStyle", "clusterProfiler", "dplyr", "forcats", "ggplot2", "magrittr", "org_Hs_eg_db", "org_Mm_eg_db", "rlang", "vctrs"]
|
|
},
|
|
"EmpiricalBrownsMethod": {
|
|
"name": "EmpiricalBrownsMethod",
|
|
"version": "1.32.0",
|
|
"sha256": "1r34sj45liw2ya6842c4fxnph6kax712f8mqr0flvcy2k7g45ccn",
|
|
"depends": []
|
|
},
|
|
"EnMCB": {
|
|
"name": "EnMCB",
|
|
"version": "1.16.0",
|
|
"sha256": "1m3d92abl2qdkd82wnf6imx9xgxi4w94wiy84vnwn9g3r9kxl1p2",
|
|
"depends": ["BiocFileCache", "Matrix", "boot", "e1071", "ggplot2", "glmnet", "igraph", "mboost", "rms", "survival", "survivalROC", "survivalsvm"]
|
|
},
|
|
"EnhancedVolcano": {
|
|
"name": "EnhancedVolcano",
|
|
"version": "1.22.0",
|
|
"sha256": "0ry5r74d6m5x15b4azw93mjrvq4fapj4rxpi9f6macz4l5l6j1j0",
|
|
"depends": ["ggplot2", "ggrepel"]
|
|
},
|
|
"EnrichedHeatmap": {
|
|
"name": "EnrichedHeatmap",
|
|
"version": "1.34.0",
|
|
"sha256": "0fmqz9xqs1108a5xxpsc63pplcc0i742r4zdk46p68my28ba2xfq",
|
|
"depends": ["ComplexHeatmap", "GenomicRanges", "GetoptLong", "IRanges", "Rcpp", "circlize", "locfit", "matrixStats"]
|
|
},
|
|
"EnrichmentBrowser": {
|
|
"name": "EnrichmentBrowser",
|
|
"version": "2.34.1",
|
|
"sha256": "1drmdr1z2fyyf566vv5arkbwpfkwxajh555nasnkbnpqdrq3b93q",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "BiocManager", "GO_db", "GSEABase", "KEGGREST", "KEGGgraph", "Rgraphviz", "S4Vectors", "SPIA", "SummarizedExperiment", "edgeR", "graph", "graphite", "hwriter", "limma", "pathview", "safe"]
|
|
},
|
|
"EpiDISH": {
|
|
"name": "EpiDISH",
|
|
"version": "2.20.0",
|
|
"sha256": "17qkm5inavfdfrim9baqxdhs3w64c6y94qadw4y5p9xsck318frq",
|
|
"depends": ["MASS", "Matrix", "e1071", "locfdr", "matrixStats", "quadprog", "stringr"]
|
|
},
|
|
"EpiMix": {
|
|
"name": "EpiMix",
|
|
"version": "1.6.1",
|
|
"sha256": "1m8mlxhci56d4d1iingwj8ddmddpm02an8dhh6m4ka4vpg7q51as",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "Biobase", "ELMER_data", "EpiMix_data", "ExperimentHub", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "RCurl", "RPMM", "R_matlab", "S4Vectors", "SummarizedExperiment", "biomaRt", "data_table", "doParallel", "doSNOW", "downloader", "dplyr", "foreach", "ggplot2", "impute", "limma", "plyr", "progress", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"EpiTxDb": {
|
|
"name": "EpiTxDb",
|
|
"version": "1.16.0",
|
|
"sha256": "11f2a9qhbl605mzj6z673j0hlgd3a80c2qigkcw9q81745rd5lrg",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Modstrings", "RSQLite", "S4Vectors", "curl", "httr", "rex", "tRNAdbImport", "txdbmaker", "xml2"]
|
|
},
|
|
"EventPointer": {
|
|
"name": "EventPointer",
|
|
"version": "3.12.0",
|
|
"sha256": "1d13s9pww3kjdm0nfnz598jng9vl66jl6y52rczdcflxikfgip0i",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "MASS", "Matrix", "RBGL", "S4Vectors", "SGSeq", "SummarizedExperiment", "abind", "affxparser", "cobs", "doParallel", "fgsea", "foreach", "glmnet", "graph", "igraph", "iterators", "limma", "lpSolve", "matrixStats", "nnls", "poibin", "prodlim", "qvalue", "rhdf5", "speedglm", "stringr", "tximport"]
|
|
},
|
|
"ExCluster": {
|
|
"name": "ExCluster",
|
|
"version": "1.22.0",
|
|
"sha256": "1drpwz9pba4w36sbp53jrlmwbzr68fysrzqa06qb5347sxl94ac1",
|
|
"depends": ["GenomicRanges", "IRanges", "Rsubread", "matrixStats", "rtracklayer"]
|
|
},
|
|
"ExiMiR": {
|
|
"name": "ExiMiR",
|
|
"version": "2.46.0",
|
|
"sha256": "01bdi0d9afwyndfcjkaand4qpmbx6i437183s9g16i13vzwh1wk4",
|
|
"depends": ["Biobase", "affy", "affyio", "limma", "preprocessCore"]
|
|
},
|
|
"ExperimentHub": {
|
|
"name": "ExperimentHub",
|
|
"version": "2.12.0",
|
|
"sha256": "0mj1aqxyp84mn5m0fwk9lijysy594hhga3kv4mddv45vqxdsr08h",
|
|
"depends": ["AnnotationHub", "BiocFileCache", "BiocGenerics", "BiocManager", "S4Vectors", "rappdirs"]
|
|
},
|
|
"ExperimentHubData": {
|
|
"name": "ExperimentHubData",
|
|
"version": "1.30.0",
|
|
"sha256": "1adm3b0nacbdi4x5z71iiif9d876m3ip6crhbbr2hw4mbk6is7qn",
|
|
"depends": ["AnnotationHubData", "BiocGenerics", "BiocManager", "DBI", "ExperimentHub", "S4Vectors", "curl", "httr"]
|
|
},
|
|
"ExperimentSubset": {
|
|
"name": "ExperimentSubset",
|
|
"version": "1.14.0",
|
|
"sha256": "0san9jjdgx9m5cl2pdn17v6j6vd865jr80r4258fifywr7yqdnm1",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "TreeSummarizedExperiment"]
|
|
},
|
|
"ExploreModelMatrix": {
|
|
"name": "ExploreModelMatrix",
|
|
"version": "1.16.0",
|
|
"sha256": "01ys9p7q3pmz7qfw1ggppchqq8yzrjsd91fa1r6h3a2rz8azdi2g",
|
|
"depends": ["DT", "MASS", "S4Vectors", "cowplot", "dplyr", "ggplot2", "limma", "magrittr", "rintrojs", "scales", "shiny", "shinydashboard", "shinyjs", "tibble", "tidyr"]
|
|
},
|
|
"ExpressionAtlas": {
|
|
"name": "ExpressionAtlas",
|
|
"version": "1.32.0",
|
|
"sha256": "1plxw5jf2lpa8away57nr1jch14d3lz0f33sjv958kyqzhar7zml",
|
|
"depends": ["Biobase", "BiocStyle", "RCurl", "S4Vectors", "SummarizedExperiment", "XML", "httr", "jsonlite", "limma", "xml2"]
|
|
},
|
|
"FEAST": {
|
|
"name": "FEAST",
|
|
"version": "1.12.0",
|
|
"sha256": "0w6pkq3lc9l42fnwa35lcnbw52ylbjs65w6dsh2k5wcgs0jig8rp",
|
|
"depends": ["BiocParallel", "SC3", "SingleCellExperiment", "SummarizedExperiment", "TSCAN", "irlba", "matrixStats", "mclust"]
|
|
},
|
|
"FELLA": {
|
|
"name": "FELLA",
|
|
"version": "1.24.0",
|
|
"sha256": "1rbb5lfz7maicw0hx5sd1jg9rqxlcmv6bfyakp4ics9azxwk899i",
|
|
"depends": ["KEGGREST", "Matrix", "igraph", "plyr"]
|
|
},
|
|
"FGNet": {
|
|
"name": "FGNet",
|
|
"version": "3.38.0",
|
|
"sha256": "128dc1mhqj0vxqcivra79k0c8jwr9zcrcwzkkr69czzv5i7szw8d",
|
|
"depends": ["RColorBrewer", "R_utils", "XML", "hwriter", "igraph", "plotrix", "png", "reshape2"]
|
|
},
|
|
"FISHalyseR": {
|
|
"name": "FISHalyseR",
|
|
"version": "1.38.0",
|
|
"sha256": "1f3iv48l2wbx8izn0z0lnk2k8ssm6bj6ai02kd5ww5kk7gqg6ka7",
|
|
"depends": ["EBImage", "abind"]
|
|
},
|
|
"FLAMES": {
|
|
"name": "FLAMES",
|
|
"version": "1.10.0",
|
|
"sha256": "1fcz0v1vy0q5zmdpawlk4a7fbqd01954p0jby9nbzgbk85hl16mi",
|
|
"depends": ["BiocGenerics", "Biostrings", "ComplexHeatmap", "DropletUtils", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "MultiAssayExperiment", "RColorBrewer", "Rcpp", "Rhtslib", "Rsamtools", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "bambu", "basilisk", "circlize", "cowplot", "dplyr", "future", "ggbio", "ggplot2", "gridExtra", "igraph", "jsonlite", "magrittr", "reticulate", "rtracklayer", "scater", "scran", "scuttle", "stringr", "testthat", "tibble", "tidyr", "tidyselect", "txdbmaker", "withr", "zlibbioc"]
|
|
},
|
|
"FRASER": {
|
|
"name": "FRASER",
|
|
"version": "2.0.0",
|
|
"sha256": "0q36p80ff0hq37ddjpx6czkllpmlkj00h6fq32hbmr9cyh3rz2d8",
|
|
"depends": ["AnnotationDbi", "BBmisc", "BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "DelayedArray", "DelayedMatrixStats", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "HDF5Array", "IRanges", "OUTRIDER", "PRROC", "RColorBrewer", "R_utils", "Rcpp", "RcppArmadillo", "Rsamtools", "Rsubread", "S4Vectors", "SummarizedExperiment", "VGAM", "biomaRt", "cowplot", "data_table", "extraDistr", "generics", "ggplot2", "ggrepel", "matrixStats", "pcaMethods", "pheatmap", "plotly", "rhdf5", "tibble"]
|
|
},
|
|
"FRGEpistasis": {
|
|
"name": "FRGEpistasis",
|
|
"version": "1.40.0",
|
|
"sha256": "0fpph9rrkakaxah4f8bcbny4yd8w4zp38666ff8mrvvlzx5fn313",
|
|
"depends": ["MASS", "fda"]
|
|
},
|
|
"FamAgg": {
|
|
"name": "FamAgg",
|
|
"version": "1.32.0",
|
|
"sha256": "0qcd028bamdj4v24rdqymk2zc02kj7yc8p1q19vvzk8h1hxvh98l",
|
|
"depends": ["BiocGenerics", "Matrix", "gap", "igraph", "kinship2", "survey"]
|
|
},
|
|
"FastqCleaner": {
|
|
"name": "FastqCleaner",
|
|
"version": "1.22.0",
|
|
"sha256": "0bwbg3b8w27whbg8gl2ga58fwm95cyra45f2y609izrx9vjz7dcr",
|
|
"depends": ["Biostrings", "DT", "IRanges", "Rcpp", "S4Vectors", "ShortRead", "htmltools", "shiny", "shinyBS"]
|
|
},
|
|
"FeatSeekR": {
|
|
"name": "FeatSeekR",
|
|
"version": "1.4.0",
|
|
"sha256": "0r72wl0wjzfvh8wmpn6ppffsh6yrydkyni1pbxsw865j5rkiiyqd",
|
|
"depends": ["MASS", "SummarizedExperiment", "pheatmap", "pracma"]
|
|
},
|
|
"FilterFFPE": {
|
|
"name": "FilterFFPE",
|
|
"version": "1.14.0",
|
|
"sha256": "1pjks7wadlyyhaz9lcrhxamjqjaq0nnyxkv6jxb4adrh5hwvgxfx",
|
|
"depends": ["GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "doParallel", "foreach"]
|
|
},
|
|
"FindIT2": {
|
|
"name": "FindIT2",
|
|
"version": "1.10.0",
|
|
"sha256": "03bfmxln17lnvzmmsc3g64nk1vs6fg4bphlszqgxhdxwbjjg4nf2",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "ggrepel", "glmnet", "patchwork", "progress", "purrr", "qvalue", "rlang", "rtracklayer", "stringr", "tibble", "tidyr", "withr"]
|
|
},
|
|
"FitHiC": {
|
|
"name": "FitHiC",
|
|
"version": "1.30.0",
|
|
"sha256": "107hm9k9wfr34fradldmjym2bzxb6qx8109p4a7xrqkiya0hmwwa",
|
|
"depends": ["Rcpp", "data_table", "fdrtool"]
|
|
},
|
|
"FlowSOM": {
|
|
"name": "FlowSOM",
|
|
"version": "2.12.0",
|
|
"sha256": "0xqrp184p00pvzzf6ddmp2r8lpg97bm0q6smjwcrfb8rn4msxmis",
|
|
"depends": ["BiocGenerics", "ConsensusClusterPlus", "Rtsne", "XML", "colorRamps", "dplyr", "flowCore", "ggforce", "ggnewscale", "ggplot2", "ggpubr", "igraph", "magrittr", "rlang", "tidyr"]
|
|
},
|
|
"FuseSOM": {
|
|
"name": "FuseSOM",
|
|
"version": "1.6.0",
|
|
"sha256": "1qbk2rdc7fdhkglwzhsyrysb51qwjsyjy9m6pgbbcwi14iwwhnf2",
|
|
"depends": ["FCPS", "Rcpp", "S4Vectors", "SummarizedExperiment", "analogue", "cluster", "coop", "diptest", "fastcluster", "fpc", "ggplot2", "ggplotify", "ggpubr", "pheatmap", "proxy", "psych", "stringr"]
|
|
},
|
|
"GA4GHclient": {
|
|
"name": "GA4GHclient",
|
|
"version": "1.28.0",
|
|
"sha256": "1x5k9l2f4fw5da1aacwd0b7rn9kjpbzf8vl9h76n4d92fdh25jlh",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "VariantAnnotation", "dplyr", "httr", "jsonlite"]
|
|
},
|
|
"GA4GHshiny": {
|
|
"name": "GA4GHshiny",
|
|
"version": "1.26.0",
|
|
"sha256": "1vj0p1akcgzq2q43yir0g2klggjw8970chhzibw7yb5qxr2fz9ai",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "DT", "GA4GHclient", "GenomeInfoDb", "GenomicFeatures", "S4Vectors", "dplyr", "openxlsx", "purrr", "shiny", "shinyjs", "shinythemes", "tidyr"]
|
|
},
|
|
"GARS": {
|
|
"name": "GARS",
|
|
"version": "1.24.0",
|
|
"sha256": "1wi56b6h1fi1rr4hrpbby6iwgax36q01h6hr2nm4bgb7cx6l3bii",
|
|
"depends": ["DaMiRseq", "MLSeq", "SummarizedExperiment", "cluster", "ggplot2"]
|
|
},
|
|
"GAprediction": {
|
|
"name": "GAprediction",
|
|
"version": "1.30.0",
|
|
"sha256": "0p38ivjzp0nsyr85a323xgjwb2amsmvr10ajq9m51z9acl4jzakx",
|
|
"depends": ["Matrix", "glmnet"]
|
|
},
|
|
"GBScleanR": {
|
|
"name": "GBScleanR",
|
|
"version": "1.8.18",
|
|
"sha256": "1il1h9njfvhi4kxn30bhc31nkmr91b9imfafq68ccz947ckzhkpm",
|
|
"depends": ["Rcpp", "RcppParallel", "SeqArray", "expm", "gdsfmt", "ggplot2", "tidyr"]
|
|
},
|
|
"GDCRNATools": {
|
|
"name": "GDCRNATools",
|
|
"version": "1.24.0",
|
|
"sha256": "1grhgzl08f2infvvpd5084mvplvgqb0qa7d6afrfv6n5wigwnvbv",
|
|
"depends": ["BiocParallel", "DESeq2", "DOSE", "DT", "GenomicDataCommons", "XML", "biomaRt", "clusterProfiler", "edgeR", "ggplot2", "gplots", "jsonlite", "limma", "org_Hs_eg_db", "pathview", "rjson", "shiny", "survival", "survminer"]
|
|
},
|
|
"GDSArray": {
|
|
"name": "GDSArray",
|
|
"version": "1.24.2",
|
|
"sha256": "01sjx63m9affj46s6l3byj9m127bipid230jdlxnwans38x5jsxr",
|
|
"depends": ["BiocGenerics", "DelayedArray", "S4Vectors", "SNPRelate", "SeqArray", "gdsfmt"]
|
|
},
|
|
"GEM": {
|
|
"name": "GEM",
|
|
"version": "1.30.0",
|
|
"sha256": "1idp44h5szwwradv6i4bkgy055gaa04d5sxrv0r683h717pqagh5",
|
|
"depends": ["ggplot2"]
|
|
},
|
|
"GENESIS": {
|
|
"name": "GENESIS",
|
|
"version": "2.34.0",
|
|
"sha256": "1jk0mw183v2nxabx58kwm8fwm6r2ikbc90ilxdmivfsxc7gx534r",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "GWASTools", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "SNPRelate", "SeqArray", "SeqVarTools", "data_table", "gdsfmt", "igraph", "reshape2"]
|
|
},
|
|
"GENIE3": {
|
|
"name": "GENIE3",
|
|
"version": "1.26.0",
|
|
"sha256": "0ijwyx42saqas52273c63c3yi948bh4pd4lifyqi3zjjs17bj1cg",
|
|
"depends": ["dplyr", "reshape2"]
|
|
},
|
|
"GEOexplorer": {
|
|
"name": "GEOexplorer",
|
|
"version": "1.10.0",
|
|
"sha256": "0hb9hgkb5nc2mdri18y22s4qi5hdp3zclmpdz2q7hdvqhqg6kqzv",
|
|
"depends": ["Biobase", "DT", "GEOquery", "R_utils", "XML", "car", "edgeR", "enrichR", "factoextra", "ggplot2", "heatmaply", "htmltools", "httr", "impute", "knitr", "limma", "markdown", "pheatmap", "plotly", "readxl", "scales", "shiny", "shinyHeatmaply", "shinybusy", "shinycssloaders", "stringr", "sva", "umap", "xfun", "xml2"]
|
|
},
|
|
"GEOfastq": {
|
|
"name": "GEOfastq",
|
|
"version": "1.12.0",
|
|
"sha256": "18wi24a6j04fflank3rw4z852j21zarca0by7g5kwq1ym2dy2xld",
|
|
"depends": ["RCurl", "doParallel", "foreach", "plyr", "rvest", "stringr", "xml2"]
|
|
},
|
|
"GEOmetadb": {
|
|
"name": "GEOmetadb",
|
|
"version": "1.66.0",
|
|
"sha256": "0yafdqcwkyv3sc3wcfbpciy04vqciqjfihsf0gyfcza75gjkqy0w",
|
|
"depends": ["GEOquery", "RSQLite"]
|
|
},
|
|
"GEOquery": {
|
|
"name": "GEOquery",
|
|
"version": "2.72.0",
|
|
"sha256": "0rqyv95l8h3s68ywhv3r7hm7j1mbm8prql7p2rlvv4xg31yqmnpl",
|
|
"depends": ["Biobase", "R_utils", "curl", "data_table", "dplyr", "limma", "magrittr", "readr", "tidyr", "xml2"]
|
|
},
|
|
"GEOsubmission": {
|
|
"name": "GEOsubmission",
|
|
"version": "1.56.0",
|
|
"sha256": "1kvk6v1pj6f252lzlvw79ffd7wadlc6kvpa174msi75ww5s2qfc0",
|
|
"depends": ["Biobase", "affy"]
|
|
},
|
|
"GEWIST": {
|
|
"name": "GEWIST",
|
|
"version": "1.48.0",
|
|
"sha256": "0q6rbx7qy8cmdafv4qabx6ppyq3x6658jr0139xv61nzgi8395v4",
|
|
"depends": ["car"]
|
|
},
|
|
"GGPA": {
|
|
"name": "GGPA",
|
|
"version": "1.16.0",
|
|
"sha256": "1lg62vxn4z6z3l9d18gmyvdr456hs76lczxfq8j2w509gflcrskb",
|
|
"depends": ["GGally", "Rcpp", "RcppArmadillo", "matrixStats", "network", "scales", "sna"]
|
|
},
|
|
"GIGSEA": {
|
|
"name": "GIGSEA",
|
|
"version": "1.22.0",
|
|
"sha256": "1yhxpm1amm6anzcss31pkg5xzw4q1nq1hjb6rx5p7a5dh9h8hdna",
|
|
"depends": ["MASS", "Matrix", "locfdr"]
|
|
},
|
|
"GLAD": {
|
|
"name": "GLAD",
|
|
"version": "2.68.0",
|
|
"sha256": "01qn4v7b7b633dz01njzmg48lga861pfqnys9f0fbk9damxc6rr1",
|
|
"depends": ["aws"]
|
|
},
|
|
"GMRP": {
|
|
"name": "GMRP",
|
|
"version": "1.32.0",
|
|
"sha256": "0g2pmnngpv9k7gaz7bd5b0gn9i0i86q36fcapai93w76ml8ccvab",
|
|
"depends": ["GenomicRanges", "diagram", "plotrix"]
|
|
},
|
|
"GNET2": {
|
|
"name": "GNET2",
|
|
"version": "1.20.0",
|
|
"sha256": "1hgzvl4k5q84ig9njmfvmdwc64h7nwsg0kcsi3da3mizxahaj780",
|
|
"depends": ["DiagrammeR", "Rcpp", "SummarizedExperiment", "dplyr", "ggplot2", "igraph", "matrixStats", "reshape2", "xgboost"]
|
|
},
|
|
"GNOSIS": {
|
|
"name": "GNOSIS",
|
|
"version": "1.2.0",
|
|
"sha256": "0m20w85kixxqydrrf5cbphr1hvzlc2wmwjf68s9rr0llcfv7gy3r",
|
|
"depends": ["DT", "DescTools", "RColorBrewer", "cBioPortalData", "car", "compareGroups", "dashboardthemes", "fabricatr", "fontawesome", "maftools", "magrittr", "operator_tools", "partykit", "reshape2", "rpart", "rstatix", "shiny", "shinyWidgets", "shinycssloaders", "shinydashboard", "shinydashboardPlus", "shinyjs", "shinylogs", "shinymeta", "survival", "survminer", "tidyverse"]
|
|
},
|
|
"GOSemSim": {
|
|
"name": "GOSemSim",
|
|
"version": "2.30.0",
|
|
"sha256": "0985w9b2iw7jbmpymfvqmpzshsy0lvqw7whc1djdnh58lwscnhcq",
|
|
"depends": ["AnnotationDbi", "GO_db", "Rcpp", "rlang", "yulab_utils"]
|
|
},
|
|
"GOTHiC": {
|
|
"name": "GOTHiC",
|
|
"version": "1.40.0",
|
|
"sha256": "101mf3pkchz0il0czrwixx1pv8hq9cjh8m59nii00m2vwma3slrd",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocManager", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "data_table", "ggplot2", "rtracklayer"]
|
|
},
|
|
"GOexpress": {
|
|
"name": "GOexpress",
|
|
"version": "1.38.0",
|
|
"sha256": "0hz01hmp4bf9njw79zqy08zx9q3c6qfs2xykz5x7xkngp65mzkxf",
|
|
"depends": ["Biobase", "RColorBrewer", "RCurl", "biomaRt", "ggplot2", "gplots", "randomForest", "stringr"]
|
|
},
|
|
"GOfuncR": {
|
|
"name": "GOfuncR",
|
|
"version": "1.24.0",
|
|
"sha256": "1g3nppcmyj81ia3v9zvsr8jplk8kmvssspvxd94zxh6yb3wrrc6v",
|
|
"depends": ["AnnotationDbi", "GenomicRanges", "IRanges", "Rcpp", "gtools", "mapplots", "vioplot"]
|
|
},
|
|
"GOpro": {
|
|
"name": "GOpro",
|
|
"version": "1.30.0",
|
|
"sha256": "0s8yyg5myxvw61zai54d3dhai1cm43i8s8wnpf0qc476q4v2xgzl",
|
|
"depends": ["AnnotationDbi", "BH", "GO_db", "IRanges", "MultiAssayExperiment", "Rcpp", "S4Vectors", "dendextend", "doParallel", "foreach", "org_Hs_eg_db"]
|
|
},
|
|
"GOstats": {
|
|
"name": "GOstats",
|
|
"version": "2.70.0",
|
|
"sha256": "1dygsr8nlqksfpk00lk67dhj4fcpjg1x4dbl2r4sfanlk4hq76cs",
|
|
"depends": ["AnnotationDbi", "AnnotationForge", "Biobase", "Category", "GO_db", "RBGL", "Rgraphviz", "annotate", "graph"]
|
|
},
|
|
"GPA": {
|
|
"name": "GPA",
|
|
"version": "1.16.0",
|
|
"sha256": "1z97rwlqvahsjcrm1j00cz9lgnw1wym6lwhi7gf8g17avgk6s7g4",
|
|
"depends": ["DT", "Rcpp", "ggplot2", "ggrepel", "plyr", "shiny", "shinyBS", "vegan"]
|
|
},
|
|
"GRENITS": {
|
|
"name": "GRENITS",
|
|
"version": "1.56.0",
|
|
"sha256": "04nbvr080s6syb2d981g4402ghl2gh6f2gwsiv41nnj4narvs752",
|
|
"depends": ["Rcpp", "RcppArmadillo", "ggplot2", "reshape2"]
|
|
},
|
|
"GRaNIE": {
|
|
"name": "GRaNIE",
|
|
"version": "1.8.0",
|
|
"sha256": "1zdi6h1kmnj3b23qv268jg0iqfvgvn0h17d5l17yx3si9czcr8qr",
|
|
"depends": ["AnnotationHub", "Biostrings", "ComplexHeatmap", "DESeq2", "GenomeInfoDb", "GenomicRanges", "Matrix", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "biomaRt", "checkmate", "circlize", "colorspace", "data_table", "dplyr", "ensembldb", "forcats", "futile_logger", "ggplot2", "gridExtra", "igraph", "limma", "magrittr", "matrixStats", "patchwork", "progress", "readr", "reshape2", "rlang", "scales", "stringr", "tibble", "tidyr", "tidyselect", "topGO", "viridis"]
|
|
},
|
|
"GRmetrics": {
|
|
"name": "GRmetrics",
|
|
"version": "1.30.0",
|
|
"sha256": "02dqb1n4q5zwhfhmdrynfa5djgnvry11x69r3z94rscxl94k9pan",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "drc", "ggplot2", "plotly"]
|
|
},
|
|
"GSALightning": {
|
|
"name": "GSALightning",
|
|
"version": "1.32.0",
|
|
"sha256": "0cmp5c22fhykld7napzk2220lzzizslsx2zi0slmiifapcrjg9vy",
|
|
"depends": ["Matrix", "data_table"]
|
|
},
|
|
"GSAR": {
|
|
"name": "GSAR",
|
|
"version": "1.38.0",
|
|
"sha256": "0i3k977vv3ik9yjgwpv7r1wnd982a1m2vg5rawi99hkf703cjly6",
|
|
"depends": ["igraph"]
|
|
},
|
|
"GSCA": {
|
|
"name": "GSCA",
|
|
"version": "2.34.0",
|
|
"sha256": "1lycrigmlr8kcmc1svnxl3g8rzlhpk8kfmvspllyfp8cls35mypw",
|
|
"depends": ["RColorBrewer", "ggplot2", "gplots", "reshape2", "rhdf5", "shiny", "sp"]
|
|
},
|
|
"GSEABase": {
|
|
"name": "GSEABase",
|
|
"version": "1.66.0",
|
|
"sha256": "1pnd8rmpk7gm89cvrqa8qwk40dszkfkhyydxp3gl13zng9c5bq40",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "XML", "annotate", "graph"]
|
|
},
|
|
"GSEABenchmarkeR": {
|
|
"name": "GSEABenchmarkeR",
|
|
"version": "1.24.0",
|
|
"sha256": "11aczfpbc31wq9h2ri7gn17ki2f61s801zik2lkwgvly9627kfzi",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "Biobase", "BiocFileCache", "BiocParallel", "EnrichmentBrowser", "ExperimentHub", "KEGGandMetacoreDzPathwaysGEO", "KEGGdzPathwaysGEO", "S4Vectors", "SummarizedExperiment", "edgeR"]
|
|
},
|
|
"GSEAlm": {
|
|
"name": "GSEAlm",
|
|
"version": "1.64.0",
|
|
"sha256": "0fh6fds2y7fsdg6r97ydbkayryxxlw2jrc9kq4knsvagj2jb72ph",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"GSEAmining": {
|
|
"name": "GSEAmining",
|
|
"version": "1.14.0",
|
|
"sha256": "1qzvmji5qn25q3lgb06k0dsxcn65krsrsrh6n06azz8ybkja9sj6",
|
|
"depends": ["dendextend", "dplyr", "ggplot2", "ggwordcloud", "gridExtra", "rlang", "stringr", "tibble", "tidytext"]
|
|
},
|
|
"GSRI": {
|
|
"name": "GSRI",
|
|
"version": "2.52.0",
|
|
"sha256": "0b8r1cih0zn8aj9nbpmqwiiqfhk9a2f0bxcqyx77g5jlg9b504kq",
|
|
"depends": ["Biobase", "GSEABase", "fdrtool", "genefilter", "les"]
|
|
},
|
|
"GSReg": {
|
|
"name": "GSReg",
|
|
"version": "1.38.0",
|
|
"sha256": "1wfapjggz0qnaq9cg30d51c0zm5z6bhhf764qwgcbs9ngyjfwbvx",
|
|
"depends": ["AnnotationDbi", "GenomicFeatures", "Homo_sapiens", "org_Hs_eg_db"]
|
|
},
|
|
"GSVA": {
|
|
"name": "GSVA",
|
|
"version": "1.52.3",
|
|
"sha256": "08nxg3q350n5gf975r6b0zq4cr7lchv2i811crc4xbb7q39kw8k4",
|
|
"depends": ["Biobase", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "GSEABase", "HDF5Array", "IRanges", "Matrix", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "sparseMatrixStats"]
|
|
},
|
|
"GSgalgoR": {
|
|
"name": "GSgalgoR",
|
|
"version": "1.14.0",
|
|
"sha256": "0mr0gdn5zkikjn5i5clq73vgmbnirl2abp84bjyzm5pf5dknjpmh",
|
|
"depends": ["cluster", "doParallel", "foreach", "matchingR", "nsga2R", "proxy", "survival"]
|
|
},
|
|
"GUIDEseq": {
|
|
"name": "GUIDEseq",
|
|
"version": "1.34.0",
|
|
"sha256": "1xn44w1z1izzf2qr4xsmrvc468swjp6zmf4wxc33jbk5r9lv0n0x",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "CRISPRseek", "ChIPpeakAnno", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "data_table", "dplyr", "ggplot2", "hash", "limma", "matrixStats", "multtest", "openxlsx", "patchwork", "purrr", "pwalign", "rio", "rlang", "stringr", "tidyr"]
|
|
},
|
|
"GWAS_BAYES": {
|
|
"name": "GWAS.BAYES",
|
|
"version": "1.14.0",
|
|
"sha256": "05fp1wrddk9a961cx2ps0cad9rzagsyrfyfck6h1v3xb5gmz03ik",
|
|
"depends": ["GA", "MASS", "Matrix", "caret", "limma", "memoise"]
|
|
},
|
|
"GWASTools": {
|
|
"name": "GWASTools",
|
|
"version": "1.50.0",
|
|
"sha256": "013qv2wac90s1rv992bwzq4diqfq7r18qk7gcifmi22samplpnw4",
|
|
"depends": ["Biobase", "DBI", "DNAcopy", "GWASExactHW", "RSQLite", "data_table", "gdsfmt", "lmtest", "logistf", "quantsmooth", "sandwich", "survival"]
|
|
},
|
|
"GWENA": {
|
|
"name": "GWENA",
|
|
"version": "1.14.0",
|
|
"sha256": "1vwc7n0kyza4w3p7fbfrji6vamn042nwz4wa51ymcwg62j5k6yxk",
|
|
"depends": ["NetRep", "RColorBrewer", "SummarizedExperiment", "WGCNA", "cluster", "dplyr", "dynamicTreeCut", "ggplot2", "gprofiler2", "igraph", "magrittr", "matrixStats", "purrr", "rlist", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"GateFinder": {
|
|
"name": "GateFinder",
|
|
"version": "1.24.0",
|
|
"sha256": "1rcxjnjcgd3j8vm4kz97qcvgbwxs0jb66p8wzfqkcjh0p99j6a6q",
|
|
"depends": ["diptest", "flowCore", "flowFP", "mvoutlier", "splancs"]
|
|
},
|
|
"GeDi": {
|
|
"name": "GeDi",
|
|
"version": "1.0.1",
|
|
"sha256": "0s0fln04m7ywvv33qpagcabsp90v804fdd1yjzpqfk67xdwa1svg",
|
|
"depends": ["BiocFileCache", "BiocNeighbors", "BiocParallel", "ComplexHeatmap", "DT", "GOSemSim", "GeneTonic", "Matrix", "RColorBrewer", "STRINGdb", "bs4Dash", "dplyr", "fontawesome", "ggdendro", "ggplot2", "igraph", "plotly", "readxl", "rintrojs", "scales", "shiny", "shinyBS", "shinyWidgets", "shinycssloaders", "tm", "visNetwork", "wordcloud2"]
|
|
},
|
|
"GenProSeq": {
|
|
"name": "GenProSeq",
|
|
"version": "1.8.0",
|
|
"sha256": "0hpf03pjfi01l2afsm1wp5vc077adx06pb4ks602v5mxy9dm1x1y",
|
|
"depends": ["CatEncoders", "DeepPINCS", "keras", "mclust", "reticulate", "tensorflow", "ttgsea", "word2vec"]
|
|
},
|
|
"GenVisR": {
|
|
"name": "GenVisR",
|
|
"version": "1.36.0",
|
|
"sha256": "1xzzdy2mcy8as3szygly3kw6k7g5dp2vxmimcw6738fj37zbcd77",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "VariantAnnotation", "biomaRt", "data_table", "ggplot2", "gridExtra", "gtable", "gtools", "plyr", "reshape2", "scales", "viridis"]
|
|
},
|
|
"GeneBreak": {
|
|
"name": "GeneBreak",
|
|
"version": "1.34.0",
|
|
"sha256": "0vgid513n8xra71nhabxdy0h6ffqr84sf9gzaccx27yiw2l1wg4s",
|
|
"depends": ["CGHbase", "CGHcall", "GenomicRanges", "QDNAseq"]
|
|
},
|
|
"GeneExpressionSignature": {
|
|
"name": "GeneExpressionSignature",
|
|
"version": "1.50.0",
|
|
"sha256": "0rflr71jfaiyhzymvr0x9cq4mcb153qq2m4x912jawc46wf4cj3x",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"GeneGA": {
|
|
"name": "GeneGA",
|
|
"version": "1.54.0",
|
|
"sha256": "1gw9bxdmaak4g6chpya4xrvazrzb49bwlq1jk952vvgkrgcvnas1",
|
|
"depends": ["hash", "seqinr"]
|
|
},
|
|
"GeneGeneInteR": {
|
|
"name": "GeneGeneInteR",
|
|
"version": "1.30.0",
|
|
"sha256": "05d9i4nz7gf6g0g1bp0zpn3kqqfzf1lcjy7y67m1z8s96svkal47",
|
|
"depends": ["FactoMineR", "GenomicRanges", "IRanges", "Rsamtools", "data_table", "igraph", "kernlab", "mvtnorm", "snpStats"]
|
|
},
|
|
"GeneMeta": {
|
|
"name": "GeneMeta",
|
|
"version": "1.76.0",
|
|
"sha256": "1x73k2xid41f25yrzah3s9pqk51r0nda758kvfvh5py04yxs9xf1",
|
|
"depends": ["Biobase", "genefilter"]
|
|
},
|
|
"GeneNetworkBuilder": {
|
|
"name": "GeneNetworkBuilder",
|
|
"version": "1.46.0",
|
|
"sha256": "1gjirjj809c1vc3y4k07j8md0m0bksjkfy68v1v8b2d9kfws5vwc",
|
|
"depends": ["Rcpp", "Rgraphviz", "XML", "graph", "htmlwidgets", "plyr", "rjson"]
|
|
},
|
|
"GeneOverlap": {
|
|
"name": "GeneOverlap",
|
|
"version": "1.40.0",
|
|
"sha256": "0bfd4322m6g7dvas214i17k8sjsf62lza9darmhiwb4r8h30qmb2",
|
|
"depends": ["RColorBrewer", "gplots"]
|
|
},
|
|
"GeneRegionScan": {
|
|
"name": "GeneRegionScan",
|
|
"version": "1.60.0",
|
|
"sha256": "01vrw0k8s62i3mzk5f7mrnh7294i5smqgfz00bl0wjhy9yak5j34",
|
|
"depends": ["Biobase", "Biostrings", "RColorBrewer", "S4Vectors", "affxparser"]
|
|
},
|
|
"GeneSelectMMD": {
|
|
"name": "GeneSelectMMD",
|
|
"version": "2.48.0",
|
|
"sha256": "044i85vnvr5l1c1sbsh6s777invnch9yjkx3ffki9m0xnilvv5al",
|
|
"depends": ["Biobase", "MASS", "limma"]
|
|
},
|
|
"GeneStructureTools": {
|
|
"name": "GeneStructureTools",
|
|
"version": "1.24.0",
|
|
"sha256": "19inj0ds7hh4n5cq9mgi4ahx46cxpad2pfdmmhrzvlbm8ss4yw6x",
|
|
"depends": ["BSgenome_Mmusculus_UCSC_mm10", "Biostrings", "GenomicRanges", "Gviz", "IRanges", "S4Vectors", "data_table", "plyr", "rtracklayer", "stringdist", "stringr"]
|
|
},
|
|
"GeneTonic": {
|
|
"name": "GeneTonic",
|
|
"version": "2.8.0",
|
|
"sha256": "0f84sbqkhh74al1rn8fhkg4vmy0i06qadl7342gawqngxfcffzkn",
|
|
"depends": ["AnnotationDbi", "ComplexHeatmap", "ComplexUpset", "DESeq2", "DT", "GO_db", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "backbone", "bs4Dash", "circlize", "colorspace", "colourpicker", "dendextend", "dplyr", "dynamicTreeCut", "expm", "ggforce", "ggplot2", "ggrepel", "ggridges", "igraph", "matrixStats", "plotly", "rintrojs", "rlang", "rmarkdown", "scales", "shiny", "shinyAce", "shinyWidgets", "shinycssloaders", "tidyr", "tippy", "viridis", "visNetwork"]
|
|
},
|
|
"GeneticsPed": {
|
|
"name": "GeneticsPed",
|
|
"version": "1.66.0",
|
|
"sha256": "0cm65szy3nmkaxsrmv1qhpk8jsxma6b4y0v2nxg6hdqjn7z4zk43",
|
|
"depends": ["MASS", "gdata", "genetics"]
|
|
},
|
|
"GenomAutomorphism": {
|
|
"name": "GenomAutomorphism",
|
|
"version": "1.6.0",
|
|
"sha256": "13hflp7aglv8xadf1zgla8d0j1h4m4rrk0lyy0i0mxfhihl0wba8",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "XVector", "data_table", "doParallel", "dplyr", "foreach", "matrixStats", "numbers"]
|
|
},
|
|
"GenomeInfoDb": {
|
|
"name": "GenomeInfoDb",
|
|
"version": "1.40.1",
|
|
"sha256": "155wj17pbdbixyg6mimv06wg3ylll8ysqh7rffjp65fw662jwhw0",
|
|
"depends": ["BiocGenerics", "GenomeInfoDbData", "IRanges", "S4Vectors", "UCSC_utils"]
|
|
},
|
|
"GenomicAlignments": {
|
|
"name": "GenomicAlignments",
|
|
"version": "1.40.0",
|
|
"sha256": "15jzdjna0r9n6ybvyw52v1d9f05vdsdxff0g8q0pa584a1sd2s7s",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"GenomicDataCommons": {
|
|
"name": "GenomicDataCommons",
|
|
"version": "1.28.0",
|
|
"sha256": "0jg4sa1lqn028y2ympb3x4s8yr7qa8ajrwqj2hhcl8zss3sx8gr2",
|
|
"depends": ["GenomicRanges", "IRanges", "dplyr", "httr", "jsonlite", "magrittr", "rappdirs", "readr", "rlang", "tibble", "tidyr", "xml2"]
|
|
},
|
|
"GenomicDistributions": {
|
|
"name": "GenomicDistributions",
|
|
"version": "1.12.0",
|
|
"sha256": "0yicpl29qcwyzswaxqd50sa12lg8c9d5i7xgdf2m7jwskx6nx5hx",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "broom", "data_table", "dplyr", "ggplot2", "plyr", "reshape2", "scales"]
|
|
},
|
|
"GenomicFeatures": {
|
|
"name": "GenomicFeatures",
|
|
"version": "1.56.0",
|
|
"sha256": "1r1d9g5vq5y946v2z2xgmfb31k0576nj8i0yg6xfj9y2a0a6akc5",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "XVector", "rtracklayer"]
|
|
},
|
|
"GenomicFiles": {
|
|
"name": "GenomicFiles",
|
|
"version": "1.40.0",
|
|
"sha256": "1b0n5aqvg6jb6rpikjzxndmcjxp31h6vhr1magzalqg7jmlvcv6i",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MatrixGenerics", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "rtracklayer"]
|
|
},
|
|
"GenomicInteractionNodes": {
|
|
"name": "GenomicInteractionNodes",
|
|
"version": "1.8.0",
|
|
"sha256": "1xkrmpsgqqsd470f4dgnbs5zb62qfrbpmzw97jsarri57pmqxy7a",
|
|
"depends": ["AnnotationDbi", "GO_db", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RBGL", "S4Vectors", "graph"]
|
|
},
|
|
"GenomicInteractions": {
|
|
"name": "GenomicInteractions",
|
|
"version": "1.38.0",
|
|
"sha256": "16aaaa4nr1y5ng1hzw87q950clid28iqf4gkypcpihg3cz69axxg",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "InteractionSet", "Rsamtools", "S4Vectors", "data_table", "dplyr", "ggplot2", "gridExtra", "igraph", "rtracklayer", "stringr"]
|
|
},
|
|
"GenomicOZone": {
|
|
"name": "GenomicOZone",
|
|
"version": "1.18.0",
|
|
"sha256": "0i130gwf2ifgm635dhshfmnj97jqlz5nkwb98jbgz4ciq7mpdwv8",
|
|
"depends": ["Ckmeans_1d_dp", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rdpack", "S4Vectors", "biomaRt", "ggbio", "ggplot2", "gridExtra", "lsr", "plyr"]
|
|
},
|
|
"GenomicPlot": {
|
|
"name": "GenomicPlot",
|
|
"version": "1.2.4",
|
|
"sha256": "1r1fh28bmmpf7s7sm58xyxs7551d54avjafj2nq5d8gpfbwhy2js",
|
|
"depends": ["BiocGenerics", "ComplexHeatmap", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RCAS", "Rsamtools", "VennDiagram", "circlize", "cowplot", "dplyr", "edgeR", "genomation", "ggplot2", "ggplotify", "ggpubr", "ggsci", "ggsignif", "plyranges", "rtracklayer", "scales", "tidyr", "txdbmaker", "viridis"]
|
|
},
|
|
"GenomicRanges": {
|
|
"name": "GenomicRanges",
|
|
"version": "1.56.1",
|
|
"sha256": "0g0ld9i58pdxw2pwxi9nzj82mkryag457pvh6cvbvhb28pfamkma",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "IRanges", "S4Vectors", "XVector"]
|
|
},
|
|
"GenomicScores": {
|
|
"name": "GenomicScores",
|
|
"version": "2.16.0",
|
|
"sha256": "11sabicr2jm1cc9rdjr6vjqhf0gd9d7k04qlfhcdssvh02f957ia",
|
|
"depends": ["AnnotationHub", "Biobase", "BiocFileCache", "BiocGenerics", "BiocManager", "Biostrings", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "S4Vectors", "XML", "httr", "rhdf5"]
|
|
},
|
|
"GenomicSuperSignature": {
|
|
"name": "GenomicSuperSignature",
|
|
"version": "1.12.0",
|
|
"sha256": "0prplxp7l7hx6697a18kk2s5iyrdgpqwfh79n9lnala2h2q3vhs0",
|
|
"depends": ["Biobase", "BiocFileCache", "ComplexHeatmap", "S4Vectors", "SummarizedExperiment", "dplyr", "flextable", "ggplot2", "ggpubr", "irlba", "plotly"]
|
|
},
|
|
"GenomicTuples": {
|
|
"name": "GenomicTuples",
|
|
"version": "1.38.0",
|
|
"sha256": "04inysn0aa2fmbnb01zk300x8qgz8bk4rhw68ka6ni7cbrn88ysa",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rcpp", "S4Vectors", "data_table"]
|
|
},
|
|
"GeoDiff": {
|
|
"name": "GeoDiff",
|
|
"version": "1.10.0",
|
|
"sha256": "17mm22cgq0259r15d49gv07igr8dpasylrnhsycx6mjg75zvz6jp",
|
|
"depends": ["Biobase", "GeomxTools", "Matrix", "NanoStringNCTools", "Rcpp", "RcppArmadillo", "lme4", "plyr", "robust", "roptim", "testthat", "withr"]
|
|
},
|
|
"GeoTcgaData": {
|
|
"name": "GeoTcgaData",
|
|
"version": "2.4.0",
|
|
"sha256": "0hhhwnswjglxws75iqcn2sa66z9mr65n23p5i7c615n5qzrvcmw3",
|
|
"depends": ["SummarizedExperiment", "cqn", "data_table", "plyr", "topconfects"]
|
|
},
|
|
"GeomxTools": {
|
|
"name": "GeomxTools",
|
|
"version": "3.8.0",
|
|
"sha256": "093900a8himdfh752ah2wk9x5iczri0f3djsfi2mwzkb7frxpj0c",
|
|
"depends": ["Biobase", "BiocGenerics", "EnvStats", "GGally", "NanoStringNCTools", "S4Vectors", "SeuratObject", "data_table", "dplyr", "ggplot2", "lmerTest", "readxl", "reshape2", "rjson", "rlang", "stringr"]
|
|
},
|
|
"GladiaTOX": {
|
|
"name": "GladiaTOX",
|
|
"version": "1.20.0",
|
|
"sha256": "0krgsih0w60sl0gw1rpff89piv3mf1sk86hmlqjxl6idag8n2jil",
|
|
"depends": ["DBI", "RColorBrewer", "RCurl", "RJSONIO", "RMariaDB", "RSQLite", "XML", "brew", "data_table", "ggplot2", "ggrepel", "numDeriv", "stringr", "tidyr", "xtable"]
|
|
},
|
|
"Glimma": {
|
|
"name": "Glimma",
|
|
"version": "2.14.0",
|
|
"sha256": "1d7rq3irp3n0fabfgjs2x2c9lscz70a38qf3wbxvi417qn7fpyla",
|
|
"depends": ["DESeq2", "S4Vectors", "SummarizedExperiment", "edgeR", "htmlwidgets", "jsonlite", "limma"]
|
|
},
|
|
"GloScope": {
|
|
"name": "GloScope",
|
|
"version": "1.2.1",
|
|
"sha256": "02in9nq84gap80nyawvm434aqcc09idkfd3ihgnd3v8g6vx9sv3a",
|
|
"depends": ["BiocParallel", "FNN", "MASS", "RANN", "SingleCellExperiment", "ggplot2", "mclust", "mvnfast", "rlang"]
|
|
},
|
|
"GlobalAncova": {
|
|
"name": "GlobalAncova",
|
|
"version": "4.22.0",
|
|
"sha256": "0z71a5h4y740k0hx84aavfxl1kpshm4gqs7mh6zf895i2r761bqh",
|
|
"depends": ["AnnotationDbi", "Biobase", "GSEABase", "VGAM", "annotate", "corpcor", "dendextend", "globaltest"]
|
|
},
|
|
"GmicR": {
|
|
"name": "GmicR",
|
|
"version": "1.18.0",
|
|
"sha256": "19zn4n21rprfhx8zmpcl7n5jyfhdz450b9dgw1ayrnnr0w4bf67h",
|
|
"depends": ["AnnotationDbi", "Category", "DT", "GOstats", "GSEABase", "WGCNA", "ape", "bnlearn", "data_table", "doParallel", "foreach", "gRain", "gRbase", "org_Hs_eg_db", "org_Mm_eg_db", "reshape2", "shiny"]
|
|
},
|
|
"GrafGen": {
|
|
"name": "GrafGen",
|
|
"version": "1.0.0",
|
|
"sha256": "180ag0wvbhmd1vsza5lfphdx8d2phcfa4lzisi5fbk6n4195g830",
|
|
"depends": ["GenomicRanges", "RColorBrewer", "cowplot", "dplyr", "ggplot2", "ggpubr", "plotly", "rlang", "scales", "shiny", "stringr", "zlibbioc"]
|
|
},
|
|
"GraphAT": {
|
|
"name": "GraphAT",
|
|
"version": "1.76.0",
|
|
"sha256": "0mxsgd08qd7fb28gbbgx21vvd5sf3nn0ymrlshsdpsdya5vmmv3d",
|
|
"depends": ["MCMCpack", "graph"]
|
|
},
|
|
"GraphAlignment": {
|
|
"name": "GraphAlignment",
|
|
"version": "1.68.0",
|
|
"sha256": "0f8h0lhykjw2nwwvz4gics1nsv6vjzk6axsgj94zwf84j4igm9jd",
|
|
"depends": []
|
|
},
|
|
"GraphPAC": {
|
|
"name": "GraphPAC",
|
|
"version": "1.46.0",
|
|
"sha256": "0dy3yn6vhgbvn0ygrkznhaylhaslyrnmlw5kmq0inqvl9y2yl277",
|
|
"depends": ["RMallow", "TSP", "iPAC", "igraph"]
|
|
},
|
|
"GreyListChIP": {
|
|
"name": "GreyListChIP",
|
|
"version": "1.36.0",
|
|
"sha256": "0dj3pcycnjll8z1r61l6gnjvq74w2l0glrx6hqwcqvk5j7ixcdz7",
|
|
"depends": ["BSgenome", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "MASS", "Rsamtools", "SummarizedExperiment", "rtracklayer"]
|
|
},
|
|
"Guitar": {
|
|
"name": "Guitar",
|
|
"version": "2.20.0",
|
|
"sha256": "1agr3n787dqly09wy274v9dg52vdb0n0z3gdh2zsbklkbmayqxqy",
|
|
"depends": ["AnnotationDbi", "GenomicFeatures", "GenomicRanges", "dplyr", "ggplot2", "knitr", "magrittr", "rtracklayer"]
|
|
},
|
|
"Gviz": {
|
|
"name": "Gviz",
|
|
"version": "1.48.0",
|
|
"sha256": "07w37kq6zx99z980if4brwmw25vjgvxd8xj3l1893idbdf70py0p",
|
|
"depends": ["AnnotationDbi", "BSgenome", "Biobase", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "XVector", "biomaRt", "biovizBase", "digest", "ensembldb", "lattice", "latticeExtra", "matrixStats", "rtracklayer"]
|
|
},
|
|
"HDF5Array": {
|
|
"name": "HDF5Array",
|
|
"version": "1.32.1",
|
|
"sha256": "1cfm15zwfp1gxgrkknyvdaqb5fm27s2nyjrhxwkrbn32yfdrgdnz",
|
|
"depends": ["BiocGenerics", "DelayedArray", "IRanges", "Matrix", "Rhdf5lib", "S4Arrays", "S4Vectors", "rhdf5", "rhdf5filters"]
|
|
},
|
|
"HDTD": {
|
|
"name": "HDTD",
|
|
"version": "1.38.0",
|
|
"sha256": "15lc2g6mcvgy0v0pjl9f1khhznpxc7ij8aimj20w2qaz1h6sqmpp",
|
|
"depends": ["Rcpp", "RcppArmadillo"]
|
|
},
|
|
"HELP": {
|
|
"name": "HELP",
|
|
"version": "1.62.0",
|
|
"sha256": "08g9xivzgwla4qvsca015d2hr2xbgiga9wd2xm5xphhb64lgzass",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"HEM": {
|
|
"name": "HEM",
|
|
"version": "1.76.0",
|
|
"sha256": "091axqfgm8alz4k76b7ap1dl2cx7cim4l43zyvf91wimr6a13pbx",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"HERON": {
|
|
"name": "HERON",
|
|
"version": "1.2.0",
|
|
"sha256": "0z8bsvsj1xa4r93y244381yckqk4mc39ij3pabcbn2mgbihcs94d",
|
|
"depends": ["GenomicRanges", "IRanges", "Matrix", "S4Vectors", "SummarizedExperiment", "cluster", "data_table", "harmonicmeanp", "limma", "matrixStats", "metap", "spdep"]
|
|
},
|
|
"HGC": {
|
|
"name": "HGC",
|
|
"version": "1.12.0",
|
|
"sha256": "10g4lmhs8brfrci6n28iarzwm4dlvsbysssv2n25l1rp8wnl2sip",
|
|
"depends": ["Matrix", "RANN", "Rcpp", "RcppEigen", "ape", "dendextend", "dplyr", "ggplot2", "mclust", "patchwork"]
|
|
},
|
|
"HIBAG": {
|
|
"name": "HIBAG",
|
|
"version": "1.40.0",
|
|
"sha256": "1q059hqx0k9nm9xgxlzxnl93f44hjhjpf4iql0f87v560xzy1pgk",
|
|
"depends": ["RcppParallel"]
|
|
},
|
|
"HIPPO": {
|
|
"name": "HIPPO",
|
|
"version": "1.16.0",
|
|
"sha256": "1fp2jxi5xlf3archv3z8gnrc3rsh12vkprk6xhdffw9n2mqap56c",
|
|
"depends": ["Matrix", "Rtsne", "SingleCellExperiment", "dplyr", "ggplot2", "ggrepel", "gridExtra", "irlba", "magrittr", "reshape2", "rlang", "umap"]
|
|
},
|
|
"HIREewas": {
|
|
"name": "HIREewas",
|
|
"version": "1.22.0",
|
|
"sha256": "1kdiqa1g34i5gmnaxm6xc4r2wfb8ypmglrxfgv8l39l81698lp04",
|
|
"depends": ["gplots", "quadprog"]
|
|
},
|
|
"HMMcopy": {
|
|
"name": "HMMcopy",
|
|
"version": "1.46.0",
|
|
"sha256": "1i2n4i4vkxqfgdcmwhz1vcbhxk716m1blc2drzh5449y6x3qd026",
|
|
"depends": ["data_table"]
|
|
},
|
|
"HPAanalyze": {
|
|
"name": "HPAanalyze",
|
|
"version": "1.22.0",
|
|
"sha256": "1cm88rg43mwi6qqp0p48698z89niygy8zr0g1fk0s6cd5z2i6qpy",
|
|
"depends": ["dplyr", "ggplot2", "gridExtra", "openxlsx", "tibble", "xml2"]
|
|
},
|
|
"HPiP": {
|
|
"name": "HPiP",
|
|
"version": "1.10.0",
|
|
"sha256": "1kjsa8q70zvmjqcvrpcijf7w6c5k21ysdd8pd8zsxwkvck174gih",
|
|
"depends": ["MCL", "PRROC", "caret", "corrplot", "dplyr", "ggplot2", "httr", "igraph", "magrittr", "pROC", "protr", "purrr", "readr", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"HTSFilter": {
|
|
"name": "HTSFilter",
|
|
"version": "1.44.0",
|
|
"sha256": "11pqfg2msdxi57326slgp73j4dshj5r730sv1x0n9f7fd2187his",
|
|
"depends": ["Biobase", "BiocParallel", "DESeq2", "edgeR"]
|
|
},
|
|
"HTSeqGenie": {
|
|
"name": "HTSeqGenie",
|
|
"version": "4.34.0",
|
|
"sha256": "1np04hiijz9jdxvlg1mk74w19ma32qrdjb9bc5cscrs1lgw78idh",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "Cairo", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "VariantAnnotation", "VariantTools", "chipseq", "gmapR", "hwriter", "pwalign", "rtracklayer"]
|
|
},
|
|
"Harman": {
|
|
"name": "Harman",
|
|
"version": "1.32.0",
|
|
"sha256": "1b6w8wrlsvxpzbsp4vkrpfvx4icbvncl11q4j773knz5q0q9l6q0",
|
|
"depends": ["Ckmeans_1d_dp", "Rcpp", "matrixStats"]
|
|
},
|
|
"HarmonizR": {
|
|
"name": "HarmonizR",
|
|
"version": "1.2.0",
|
|
"sha256": "1bjyfxhlsslns7jiaaivld56w9j1gavdnrbciil6kiqs2q63fpj9",
|
|
"depends": ["SummarizedExperiment", "doParallel", "foreach", "janitor", "limma", "plyr", "seriation", "sva"]
|
|
},
|
|
"Harshlight": {
|
|
"name": "Harshlight",
|
|
"version": "1.76.0",
|
|
"sha256": "1nqi2ad9hnm6j8hn8f6xp9zav6rsa5wlzb2z5fjnm9q4xbjblnjl",
|
|
"depends": ["Biobase", "affy", "altcdfenvs"]
|
|
},
|
|
"Heatplus": {
|
|
"name": "Heatplus",
|
|
"version": "3.12.0",
|
|
"sha256": "1pc63hk0smcflq4903hvs4pp8r0kzlx08j0m1kxlh14cxwppamyb",
|
|
"depends": ["RColorBrewer"]
|
|
},
|
|
"HelloRanges": {
|
|
"name": "HelloRanges",
|
|
"version": "1.30.0",
|
|
"sha256": "0idv6aravk0jj8p33kvc620p60ciyrkd293ba034g6j5921ym6gx",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocIO", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "docopt", "rtracklayer"]
|
|
},
|
|
"Herper": {
|
|
"name": "Herper",
|
|
"version": "1.14.0",
|
|
"sha256": "0aj9gskx02p986n29cd1z5hrzp4qp5cvwki25vyafb805wf7v69v",
|
|
"depends": ["reticulate", "rjson", "withr"]
|
|
},
|
|
"HiCBricks": {
|
|
"name": "HiCBricks",
|
|
"version": "1.22.0",
|
|
"sha256": "0hbmy7vhg63n6r2lv8gvrlsj4xgqbf8mvaci2i4kpc9327jny2nn",
|
|
"depends": ["BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "R6", "RColorBrewer", "R_utils", "S4Vectors", "curl", "data_table", "digest", "ggplot2", "jsonlite", "readr", "reshape2", "rhdf5", "scales", "stringr", "tibble", "viridis"]
|
|
},
|
|
"HiCDCPlus": {
|
|
"name": "HiCDCPlus",
|
|
"version": "1.12.0",
|
|
"sha256": "0x95v5h1qjks87gmis7p0y4bmj7xalqbgny0qfkaw8s561fhx3j9",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicInteractions", "GenomicRanges", "IRanges", "InteractionSet", "MASS", "R_utils", "Rcpp", "S4Vectors", "bbmle", "data_table", "dplyr", "pscl", "rlang", "rtracklayer", "tibble", "tidyr"]
|
|
},
|
|
"HiCDOC": {
|
|
"name": "HiCDOC",
|
|
"version": "1.6.0",
|
|
"sha256": "1p8n3yljzlk8ic47101nw8d6dmxgadacgfh6pknkpxgk6vlcq6kh",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "InteractionSet", "Rcpp", "S4Vectors", "SummarizedExperiment", "cowplot", "data_table", "ggplot2", "gridExtra", "gtools", "multiHiCcompare", "pbapply", "zlibbioc"]
|
|
},
|
|
"HiCExperiment": {
|
|
"name": "HiCExperiment",
|
|
"version": "1.4.0",
|
|
"sha256": "0wz08jwljv8zc658xl55rwwsfvy3lc3qg9dw7d41cw37wh40dkw1",
|
|
"depends": ["BiocGenerics", "BiocIO", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "Matrix", "S4Vectors", "dplyr", "rhdf5", "strawr", "vroom"]
|
|
},
|
|
"HiCcompare": {
|
|
"name": "HiCcompare",
|
|
"version": "1.26.0",
|
|
"sha256": "1rpdqij0lvs9cyl1z5lgw91332km1nb8053kk432bais9382jkxc",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "InteractionSet", "KernSmooth", "S4Vectors", "data_table", "dplyr", "ggplot2", "gridExtra", "gtools", "mgcv", "pheatmap", "rhdf5"]
|
|
},
|
|
"HiContacts": {
|
|
"name": "HiContacts",
|
|
"version": "1.6.0",
|
|
"sha256": "18rfv9z03dqdqifrxqv1l3m9s8nykygd9y6d7pya2sdfx8f0hgza",
|
|
"depends": ["BiocGenerics", "BiocIO", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "HiCExperiment", "IRanges", "InteractionSet", "Matrix", "RSpectra", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "ggrastr", "readr", "scales", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"HiCool": {
|
|
"name": "HiCool",
|
|
"version": "1.4.0",
|
|
"sha256": "06b26szb23mngcfx5xwdw6kz10gqjs69py0iz5piia4a7vppk8zk",
|
|
"depends": ["BiocIO", "GenomicRanges", "HiCExperiment", "IRanges", "InteractionSet", "S4Vectors", "basilisk", "dplyr", "plotly", "reticulate", "rmarkdown", "rmdformats", "sessioninfo", "stringr", "vroom"]
|
|
},
|
|
"HiLDA": {
|
|
"name": "HiLDA",
|
|
"version": "1.18.0",
|
|
"sha256": "1v5gvb84q09l8i7f1d4q7zpyxlzaq5bqifia706d60700wvfan29",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "BiocGenerics", "Biostrings", "GenomicFeatures", "GenomicRanges", "R2jags", "Rcpp", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "XVector", "abind", "cowplot", "forcats", "ggplot2", "stringr", "tidyr"]
|
|
},
|
|
"HiTC": {
|
|
"name": "HiTC",
|
|
"version": "1.48.0",
|
|
"sha256": "0nxk3rdfw78bwyxjd3bbm093i8hqyk63rz0fvx3fi04qpa1fv39r",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "RColorBrewer", "rtracklayer"]
|
|
},
|
|
"HicAggR": {
|
|
"name": "HicAggR",
|
|
"version": "1.0.2",
|
|
"sha256": "1lpf7m3rsm3ng0i6gqyl6l3jvawnl8wcfjl0gkxz604bwszjvhb3",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "Matrix", "S4Vectors", "checkmate", "data_table", "dplyr", "ggplot2", "gridExtra", "purrr", "reshape", "rhdf5", "rlang", "rtracklayer", "strawr", "stringr", "tibble", "tidyr", "withr"]
|
|
},
|
|
"HilbertCurve": {
|
|
"name": "HilbertCurve",
|
|
"version": "1.34.0",
|
|
"sha256": "0kka2haa84kv2xwqny0ii0mfq0gjdh4vv1zkjk0lbqszqk1h6hab",
|
|
"depends": ["GenomicRanges", "HilbertVis", "IRanges", "circlize", "png", "polylabelr"]
|
|
},
|
|
"HilbertVis": {
|
|
"name": "HilbertVis",
|
|
"version": "1.62.0",
|
|
"sha256": "07ndnzqjpklr3k9bbnl9y7jpb91ng1wkssb4kqaxp5nsc2ixidpd",
|
|
"depends": ["lattice"]
|
|
},
|
|
"HilbertVisGUI": {
|
|
"name": "HilbertVisGUI",
|
|
"version": "1.62.0",
|
|
"sha256": "0mzb9yb9f5d6yr8889cn8n20br5mf07xg97q09hxxhxgy8pq33mf",
|
|
"depends": ["HilbertVis"]
|
|
},
|
|
"HubPub": {
|
|
"name": "HubPub",
|
|
"version": "1.12.0",
|
|
"sha256": "02xqw3xkhzk2fxx4l1h5gl5v0diamssr1dw9x871glxjl4kw07xm",
|
|
"depends": ["BiocManager", "available", "aws_s3", "biocthis", "dplyr", "fs", "usethis"]
|
|
},
|
|
"HumanTranscriptomeCompendium": {
|
|
"name": "HumanTranscriptomeCompendium",
|
|
"version": "1.20.0",
|
|
"sha256": "1y46zsl08k6sdih8psar85fyc5dfk2vraxmfry70zx57vbjbin92",
|
|
"depends": ["BiocManager", "S4Vectors", "SummarizedExperiment", "shiny", "ssrch"]
|
|
},
|
|
"HybridExpress": {
|
|
"name": "HybridExpress",
|
|
"version": "1.0.0",
|
|
"sha256": "1cpvw6ycbh60wn39ws0l6hrgy9x97glb56f87sn2qg9li6hxjshh",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "DESeq2", "RColorBrewer", "SummarizedExperiment", "ggplot2", "patchwork", "rlang"]
|
|
},
|
|
"HybridMTest": {
|
|
"name": "HybridMTest",
|
|
"version": "1.48.0",
|
|
"sha256": "0fh0v29fpwzramqnbxmzpmgiziwswdx38734g2lx303b0blkbv7j",
|
|
"depends": ["Biobase", "MASS", "fdrtool", "survival"]
|
|
},
|
|
"IFAA": {
|
|
"name": "IFAA",
|
|
"version": "1.6.0",
|
|
"sha256": "1y2vsz14d5a22m21n7zmfm64ffvh8hq0hkwnr44ifysy4zfmjg0x",
|
|
"depends": ["DescTools", "HDCI", "Matrix", "MatrixExtra", "S4Vectors", "SummarizedExperiment", "doParallel", "doRNG", "foreach", "glmnet", "mathjaxr", "parallelly", "stringr"]
|
|
},
|
|
"IHW": {
|
|
"name": "IHW",
|
|
"version": "1.32.0",
|
|
"sha256": "0j7rfyhpzr8zzyvjyphlfviy07z30nzsqq6isi4l0r4qgaziy1s6",
|
|
"depends": ["BiocGenerics", "fdrtool", "lpsymphony", "slam"]
|
|
},
|
|
"ILoReg": {
|
|
"name": "ILoReg",
|
|
"version": "1.14.0",
|
|
"sha256": "1zw6m2a5jr77mbjbzc966v98pdfw2s0sg1sqssdf7qsb0izj10b0",
|
|
"depends": ["DescTools", "LiblineaR", "Matrix", "RSpectra", "Rtsne", "S4Vectors", "SingleCellExperiment", "SparseM", "SummarizedExperiment", "aricode", "cluster", "cowplot", "dendextend", "doRNG", "doSNOW", "dplyr", "fastcluster", "foreach", "ggplot2", "parallelDist", "pheatmap", "plyr", "reshape2", "scales", "umap"]
|
|
},
|
|
"IMAS": {
|
|
"name": "IMAS",
|
|
"version": "1.28.0",
|
|
"sha256": "1n55qs4v5x7clpbhlrby5dcz9xldqrsfp6g4k6g0s1g0lk2rplqm",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "IVAS", "Matrix", "Rsamtools", "S4Vectors", "doParallel", "foreach", "ggfortify", "ggplot2", "gridExtra", "lattice", "lme4", "survival"]
|
|
},
|
|
"IMMAN": {
|
|
"name": "IMMAN",
|
|
"version": "1.24.0",
|
|
"sha256": "1yn0p53ar9b9g5d2gfyd70cp7vm69fsgn8av9lvc6qyac18w9y5j",
|
|
"depends": ["STRINGdb", "igraph", "pwalign", "seqinr"]
|
|
},
|
|
"IMPCdata": {
|
|
"name": "IMPCdata",
|
|
"version": "1.40.0",
|
|
"sha256": "0s0zap78lwgava7k3dng8hjpd1zifh9438iqfqghydq8scyr3akc",
|
|
"depends": ["rjson"]
|
|
},
|
|
"INDEED": {
|
|
"name": "INDEED",
|
|
"version": "2.18.0",
|
|
"sha256": "0ky21l4igsfznzq8is8apjhiasxryn8sjhjqjnpp1z8m7q93a0sf",
|
|
"depends": ["devtools", "glasso", "igraph", "visNetwork"]
|
|
},
|
|
"INPower": {
|
|
"name": "INPower",
|
|
"version": "1.40.0",
|
|
"sha256": "1w3gjw1avjpvnqy5ladypkr862jqd910zi74ah8rdfzid4r79klm",
|
|
"depends": ["mvtnorm"]
|
|
},
|
|
"INSPEcT": {
|
|
"name": "INSPEcT",
|
|
"version": "1.34.0",
|
|
"sha256": "0147ss218d3dnqbdgfwsg24an63qln8l5kkv0y4hm56bncdrm1i0",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "KernSmooth", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TxDb_Mmusculus_UCSC_mm9_knownGene", "deSolve", "pROC", "plgem", "readxl", "rootSolve", "rtracklayer", "shiny"]
|
|
},
|
|
"INTACT": {
|
|
"name": "INTACT",
|
|
"version": "1.4.0",
|
|
"sha256": "1r1v8cvms0dyjf0f5f9v6qp7hz0rfb2yfbckvvrkq26yjwfbmlaa",
|
|
"depends": ["SQUAREM", "bdsmatrix", "numDeriv", "tidyr"]
|
|
},
|
|
"IONiseR": {
|
|
"name": "IONiseR",
|
|
"version": "2.28.0",
|
|
"sha256": "1ihski4akl70v6kq03di6w1pz63dx6rxgmyjkm0dv0nhgkmrza22",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "ShortRead", "XVector", "bit64", "dplyr", "ggplot2", "magrittr", "rhdf5", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"IPO": {
|
|
"name": "IPO",
|
|
"version": "1.30.0",
|
|
"sha256": "0sh4ajra67j2v359022s4cm2vfc0i9wjagcjv8jh1jf5jq70dyfh",
|
|
"depends": ["BiocParallel", "CAMERA", "rsm", "xcms"]
|
|
},
|
|
"IRanges": {
|
|
"name": "IRanges",
|
|
"version": "2.38.1",
|
|
"sha256": "07q9j00rvgdbv582p01nxc99j0gfx4fsarpl1w1fjx5nb8y86k4v",
|
|
"depends": ["BiocGenerics", "S4Vectors"]
|
|
},
|
|
"ISAnalytics": {
|
|
"name": "ISAnalytics",
|
|
"version": "1.14.0",
|
|
"sha256": "05khils483a1d64ikg4j5vl3rcwsjgik04b75a6rr3crkdba7fl4",
|
|
"depends": ["DT", "bslib", "datamods", "dplyr", "forcats", "fs", "ggplot2", "ggrepel", "glue", "lifecycle", "lubridate", "purrr", "readr", "readxl", "rlang", "shiny", "shinyWidgets", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"ISLET": {
|
|
"name": "ISLET",
|
|
"version": "1.6.0",
|
|
"sha256": "0vhpxr0civdhcxiy39aycir8a68vgrydv3nx1p9rn4hhpw7dq7gi",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Matrix", "SummarizedExperiment", "abind", "lme4", "nnls", "purrr"]
|
|
},
|
|
"ISoLDE": {
|
|
"name": "ISoLDE",
|
|
"version": "1.32.0",
|
|
"sha256": "1yq7h8jjapjr7j9f2p4ikkvxh46vz4y7pdwddsi4dx7xkfjhzxmm",
|
|
"depends": []
|
|
},
|
|
"ITALICS": {
|
|
"name": "ITALICS",
|
|
"version": "2.64.0",
|
|
"sha256": "06h6iqrqzlcj4hyhj1ikl9isr3ls1pph49v5n7cp87czinr0nd3s",
|
|
"depends": ["DBI", "GLAD", "ITALICSData", "affxparser", "oligo", "oligoClasses", "pd_mapping50k_xba240"]
|
|
},
|
|
"IVAS": {
|
|
"name": "IVAS",
|
|
"version": "2.24.0",
|
|
"sha256": "15l0qga9a4q79y1r3pwcv3c0m0qpyjay3fvv7b4zwx7hvmkjfy1b",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "doParallel", "foreach", "ggfortify", "ggplot2", "lme4"]
|
|
},
|
|
"IWTomics": {
|
|
"name": "IWTomics",
|
|
"version": "1.28.0",
|
|
"sha256": "0ksmpa6f5zlgdhma1vxsfd64g7jhisffg5sbnz2xhf7faz14gc08",
|
|
"depends": ["GenomicRanges", "IRanges", "KernSmooth", "S4Vectors", "fda", "gtable"]
|
|
},
|
|
"Icens": {
|
|
"name": "Icens",
|
|
"version": "1.76.0",
|
|
"sha256": "16bblkxp8pj7qaxfzmp30lfj8vy13d3q8cf5y0g40lk4rbldx3bz",
|
|
"depends": ["survival"]
|
|
},
|
|
"IdeoViz": {
|
|
"name": "IdeoViz",
|
|
"version": "1.40.0",
|
|
"sha256": "0mq8qdhi2ccfa66rygn83hpm0fsmwiahpmrh8q522yl618mkrjcs",
|
|
"depends": ["Biobase", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "rtracklayer"]
|
|
},
|
|
"IgGeneUsage": {
|
|
"name": "IgGeneUsage",
|
|
"version": "1.18.0",
|
|
"sha256": "0b2bndc36yd0a4yi2z3870g1b9c1ddpwp44gl42ysk29qwis2yi6",
|
|
"depends": ["BH", "Rcpp", "RcppEigen", "RcppParallel", "StanHeaders", "SummarizedExperiment", "reshape2", "rstan", "rstantools", "tidyr"]
|
|
},
|
|
"InPAS": {
|
|
"name": "InPAS",
|
|
"version": "2.12.0",
|
|
"sha256": "05hzd8rixqz5d86d4gv7wh68kfbiynbp2xij9r2nj0h90av0h95b",
|
|
"depends": ["AnnotationDbi", "BSgenome", "Biobase", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "batchtools", "cleanUpdTSeq", "depmixS4", "dplyr", "flock", "future", "future_apply", "ggplot2", "limma", "magrittr", "parallelly", "plyranges", "preprocessCore", "readr", "reshape2"]
|
|
},
|
|
"InTAD": {
|
|
"name": "InTAD",
|
|
"version": "1.24.0",
|
|
"sha256": "16npavms8qxccldpik27qbsv3w0drcjr132nz2ky2cvi01bcp4l2",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "ggplot2", "ggpubr", "mclust", "qvalue", "rtracklayer"]
|
|
},
|
|
"Informeasure": {
|
|
"name": "Informeasure",
|
|
"version": "1.14.0",
|
|
"sha256": "0v4wy0gyap9w38a505hhhv1apmixazd4la8wjspdx718az92igg3",
|
|
"depends": ["entropy"]
|
|
},
|
|
"IntEREst": {
|
|
"name": "IntEREst",
|
|
"version": "1.28.0",
|
|
"sha256": "0i6q422vhf94ka0v69hs5irg506wb467rwnnn12xvsfyq54ak4dm",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "DBI", "DESeq2", "DEXSeq", "GenomicAlignments", "GenomicFeatures", "GenomicFiles", "GenomicRanges", "IRanges", "RMySQL", "Rsamtools", "S4Vectors", "SummarizedExperiment", "edgeR", "seqLogo", "seqinr", "txdbmaker"]
|
|
},
|
|
"InterCellar": {
|
|
"name": "InterCellar",
|
|
"version": "2.10.0",
|
|
"sha256": "020z08v199psgcl4z3kbwl1zgp10iwn5n60c4bq555fz6nbjb56n",
|
|
"depends": ["ComplexHeatmap", "DT", "biomaRt", "circlize", "colorspace", "colourpicker", "config", "data_table", "dendextend", "dplyr", "factoextra", "fmsb", "fs", "ggplot2", "golem", "htmltools", "htmlwidgets", "igraph", "plotly", "plyr", "readxl", "rlang", "scales", "shiny", "shinyFeedback", "shinyFiles", "shinyalert", "shinycssloaders", "shinydashboard", "signal", "tibble", "tidyr", "umap", "visNetwork", "wordcloud2"]
|
|
},
|
|
"InterMineR": {
|
|
"name": "InterMineR",
|
|
"version": "1.26.0",
|
|
"sha256": "0isw4rg89139xmrcfb9r7jc3z8jj1my4radhinah0vad2cwb36l0",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "RCurl", "RJSONIO", "S4Vectors", "SummarizedExperiment", "XML", "httr", "igraph", "sqldf", "xml2"]
|
|
},
|
|
"InteractionSet": {
|
|
"name": "InteractionSet",
|
|
"version": "1.32.0",
|
|
"sha256": "0ikkmhz6grmhksmyypj9hqmblls4cgww0dx4kzg4cy5bpavsq1hs",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"InteractiveComplexHeatmap": {
|
|
"name": "InteractiveComplexHeatmap",
|
|
"version": "1.12.0",
|
|
"sha256": "0sfhr3f7fdw9zgw2wn7dhk1zwmhn3k3iy8xa0j9dv7bpa2mcvw1b",
|
|
"depends": ["ComplexHeatmap", "GetoptLong", "IRanges", "RColorBrewer", "S4Vectors", "clisymbols", "digest", "fontawesome", "htmltools", "jsonlite", "kableExtra", "shiny", "svglite"]
|
|
},
|
|
"IntramiRExploreR": {
|
|
"name": "IntramiRExploreR",
|
|
"version": "1.26.0",
|
|
"sha256": "19q6znbmqj4i6k60c5f05y7s7rp9h3ra3081ra3fc5p2b74gb6cv",
|
|
"depends": ["FGNet", "igraph", "knitr"]
|
|
},
|
|
"IsoBayes": {
|
|
"name": "IsoBayes",
|
|
"version": "1.2.6",
|
|
"sha256": "146xkxzaxsaj6rdx15jrrm3k5n7k58x7jvx3cmyc03zvr25yssm7",
|
|
"depends": ["HDInterval", "Rcpp", "RcppArmadillo", "S4Vectors", "SummarizedExperiment", "data_table", "doParallel", "doRNG", "foreach", "ggplot2", "glue", "iterators"]
|
|
},
|
|
"IsoCorrectoR": {
|
|
"name": "IsoCorrectoR",
|
|
"version": "1.22.0",
|
|
"sha256": "19h5wndzj3sgvhb7blx07pjammh05kwp5vwjv0drvlj829pqhkia",
|
|
"depends": ["WriteXLS", "dplyr", "magrittr", "pracma", "quadprog", "readr", "readxl", "stringr", "tibble"]
|
|
},
|
|
"IsoCorrectoRGUI": {
|
|
"name": "IsoCorrectoRGUI",
|
|
"version": "1.20.0",
|
|
"sha256": "1zwnp50sargc3991v22sj7hg01c1ddqi487xmvj5in7yjccys2dm",
|
|
"depends": ["IsoCorrectoR", "readxl", "tcltk2"]
|
|
},
|
|
"IsoformSwitchAnalyzeR": {
|
|
"name": "IsoformSwitchAnalyzeR",
|
|
"version": "2.4.0",
|
|
"sha256": "0mmxyq1r4kq1igj108pr0r9215hwmyph5svx0djd460knak24y6z",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DBI", "DEXSeq", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "RCurl", "S4Vectors", "SummarizedExperiment", "VennDiagram", "XVector", "dplyr", "edgeR", "futile_logger", "ggplot2", "gridExtra", "limma", "magrittr", "pfamAnalyzeR", "plyr", "pwalign", "readr", "reshape2", "rtracklayer", "satuRn", "stringr", "sva", "tibble", "tidyr", "tximeta", "tximport"]
|
|
},
|
|
"KBoost": {
|
|
"name": "KBoost",
|
|
"version": "1.12.0",
|
|
"sha256": "0xmnfcfvlmwgs01k81dkksgia93dvyph6kdacn9gnpl3559q5ilg",
|
|
"depends": []
|
|
},
|
|
"KCsmart": {
|
|
"name": "KCsmart",
|
|
"version": "2.62.0",
|
|
"sha256": "0qc8kp5y9dcq23wsqpbin9hds1j5jnq3w255rg3k0ni1iq95c6m4",
|
|
"depends": ["BiocGenerics", "KernSmooth", "multtest", "siggenes"]
|
|
},
|
|
"KEGGREST": {
|
|
"name": "KEGGREST",
|
|
"version": "1.44.1",
|
|
"sha256": "09qdsdbz5ha3b2fafwv80n6pdajjgsc5w52n1dy6ds41vxgf0jis",
|
|
"depends": ["Biostrings", "httr", "png"]
|
|
},
|
|
"KEGGgraph": {
|
|
"name": "KEGGgraph",
|
|
"version": "1.64.0",
|
|
"sha256": "0lffqbvwmfjbw5ymxr969znvb53hbqfgq1zwffsc768rv3h4c6p7",
|
|
"depends": ["RCurl", "Rgraphviz", "XML", "graph"]
|
|
},
|
|
"KEGGlincs": {
|
|
"name": "KEGGlincs",
|
|
"version": "1.30.0",
|
|
"sha256": "0jxa42ax4r991vc2cqjdzyfwknf5929xyvlpimra3fbpgpp8sjpg",
|
|
"depends": ["AnnotationDbi", "KEGGREST", "KEGGgraph", "KOdata", "RJSONIO", "XML", "gtools", "hgu133a_db", "httr", "igraph", "org_Hs_eg_db", "plyr"]
|
|
},
|
|
"KinSwingR": {
|
|
"name": "KinSwingR",
|
|
"version": "1.22.0",
|
|
"sha256": "0dlqwi2a9hbl4nh6kp4bxv3acvnvmgg5ssbymvf2k8ng4g1kxi3r",
|
|
"depends": ["BiocParallel", "data_table", "sqldf"]
|
|
},
|
|
"KnowSeq": {
|
|
"name": "KnowSeq",
|
|
"version": "1.18.0",
|
|
"sha256": "1iv6cghkq0qi0d2fsj9x74jzvf1zrrknc3kx1b1xpa7lc0x11ym4",
|
|
"depends": ["Hmisc", "R_utils", "XML", "caret", "cqn", "e1071", "edgeR", "ggplot2", "gridExtra", "httr", "jsonlite", "kernlab", "limma", "praznik", "randomForest", "reshape2", "rlist", "rmarkdown", "stringr", "sva"]
|
|
},
|
|
"LACE": {
|
|
"name": "LACE",
|
|
"version": "2.8.0",
|
|
"sha256": "07izkiljmq0rbrijsgv45qvpp4zmaw78qqavzbvaw729pl172haz",
|
|
"depends": ["DT", "Matrix", "RColorBrewer", "Rfast", "SummarizedExperiment", "biomaRt", "bsplus", "callr", "configr", "curl", "data_table", "data_tree", "doParallel", "dplyr", "forcats", "foreach", "fs", "ggplot2", "htmltools", "htmlwidgets", "igraph", "jsonlite", "logr", "purrr", "readr", "shiny", "shinyBS", "shinyFiles", "shinydashboard", "shinyjs", "shinythemes", "shinyvalidate", "sortable", "stringi", "stringr", "svglite", "tidyr"]
|
|
},
|
|
"LBE": {
|
|
"name": "LBE",
|
|
"version": "1.72.0",
|
|
"sha256": "03vmsblzh5vw8p8xdd39cbl714rq1nh4wqflprsmpnyd1gkn8p4z",
|
|
"depends": []
|
|
},
|
|
"LEA": {
|
|
"name": "LEA",
|
|
"version": "3.16.0",
|
|
"sha256": "0r6nj6ck77fhbmqifbx4srj1f3yr7haiinphcm0p4g8b7zn4a6fm",
|
|
"depends": []
|
|
},
|
|
"LOBSTAHS": {
|
|
"name": "LOBSTAHS",
|
|
"version": "1.30.0",
|
|
"sha256": "0r5s92jfvavxg6amml14lfqv9azshdf6vq7pyf9izbd79whxr6wn",
|
|
"depends": ["CAMERA", "xcms"]
|
|
},
|
|
"LOLA": {
|
|
"name": "LOLA",
|
|
"version": "1.34.0",
|
|
"sha256": "1i5axxzdwl6j1cgxfdfnaisv6bj4qbrhic5ba2k3wbhkgr144xcc",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "data_table", "reshape2"]
|
|
},
|
|
"LPE": {
|
|
"name": "LPE",
|
|
"version": "1.78.0",
|
|
"sha256": "1a2bgk3a1irf45rda1dnbq0gak8ldw328ibvhp10fcj2dyvd53rx",
|
|
"depends": []
|
|
},
|
|
"LRBaseDbi": {
|
|
"name": "LRBaseDbi",
|
|
"version": "2.14.0",
|
|
"sha256": "11h41iq3ivbyrd2xrhphryqkrfdyr8j8hjdyjbbfsxhq8b4pxz9a",
|
|
"depends": ["AnnotationDbi", "Biobase", "DBI", "RSQLite"]
|
|
},
|
|
"LRcell": {
|
|
"name": "LRcell",
|
|
"version": "1.12.0",
|
|
"sha256": "129wwaa6ppayyirlyra720a2yhabvihy11yfbr3yddnk7jzgzm8a",
|
|
"depends": ["AnnotationHub", "BiocParallel", "ExperimentHub", "dplyr", "ggplot2", "ggrepel", "magrittr"]
|
|
},
|
|
"LedPred": {
|
|
"name": "LedPred",
|
|
"version": "1.38.0",
|
|
"sha256": "1ziw6ya46s55gynlrl8dh6p3n0l1m01b0q6b9y6fc13pknjjbarh",
|
|
"depends": ["RCurl", "ROCR", "akima", "e1071", "ggplot2", "irr", "jsonlite", "plot3D", "plyr", "testthat"]
|
|
},
|
|
"LinTInd": {
|
|
"name": "LinTInd",
|
|
"version": "1.8.0",
|
|
"sha256": "01ij93fylp7bch2rywz31bpbhdgi8cbsn8nngsp730pd3pyw8mpf",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "S4Vectors", "ape", "cowplot", "data_tree", "dplyr", "ggnewscale", "ggplot2", "ggtree", "networkD3", "pheatmap", "purrr", "pwalign", "reshape2", "rlist", "stringdist", "stringr"]
|
|
},
|
|
"LinkHD": {
|
|
"name": "LinkHD",
|
|
"version": "1.18.0",
|
|
"sha256": "00vfzs3121l4bqy3mb4pblfjcna5zaa4iqrzrz9pfkwm2wcf2zis",
|
|
"depends": ["MultiAssayExperiment", "cluster", "data_table", "emmeans", "ggplot2", "ggpubr", "gridExtra", "reshape2", "rio", "scales", "vegan"]
|
|
},
|
|
"Linnorm": {
|
|
"name": "Linnorm",
|
|
"version": "2.28.0",
|
|
"sha256": "1la6fwaap7957rrb4cs6w48kjz4hqrw3h39lpps419d4cbnsp5jz",
|
|
"depends": ["MASS", "Rcpp", "RcppArmadillo", "Rtsne", "amap", "apcluster", "ellipse", "fastcluster", "fpc", "ggdendro", "ggplot2", "gmodels", "igraph", "limma", "mclust", "statmod", "vegan", "zoo"]
|
|
},
|
|
"LiquidAssociation": {
|
|
"name": "LiquidAssociation",
|
|
"version": "1.58.0",
|
|
"sha256": "0hgr074a4q64cyw2dbc3ncm9rwkv0d2fs5wzlkacr956wv3zzxld",
|
|
"depends": ["Biobase", "geepack", "org_Sc_sgd_db", "yeastCC"]
|
|
},
|
|
"LoomExperiment": {
|
|
"name": "LoomExperiment",
|
|
"version": "1.22.0",
|
|
"sha256": "12xx78pbfdhh1iprm8vfbnwi3dm7slf47y5a6p78spnhsykb3ris",
|
|
"depends": ["BiocIO", "DelayedArray", "GenomicRanges", "HDF5Array", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "rhdf5", "stringr"]
|
|
},
|
|
"LymphoSeq": {
|
|
"name": "LymphoSeq",
|
|
"version": "1.32.0",
|
|
"sha256": "0km3k6sbcb573mk0wb6hq1xqmbkksnvkv8mx5b9jqr4r840lh909",
|
|
"depends": ["Biostrings", "LymphoSeqDB", "RColorBrewer", "UpSetR", "VennDiagram", "circlize", "data_table", "dplyr", "ggplot2", "ggtree", "ineq", "msa", "phangorn", "plyr", "reshape", "stringdist"]
|
|
},
|
|
"M3C": {
|
|
"name": "M3C",
|
|
"version": "1.26.0",
|
|
"sha256": "1h3zxb3m68lq37g25zqxpmk2c9yrdhydyhh7ad2d30hif73qiacm",
|
|
"depends": ["Matrix", "Rtsne", "cluster", "corpcor", "doParallel", "doSNOW", "foreach", "ggplot2", "matrixcalc", "umap"]
|
|
},
|
|
"M3Drop": {
|
|
"name": "M3Drop",
|
|
"version": "1.30.0",
|
|
"sha256": "1ksdr7p517sidp99kl4bjy88i18c7hxgd7zlrj4h0zrvy3fjh1r4",
|
|
"depends": ["Hmisc", "Matrix", "RColorBrewer", "bbmle", "gplots", "irlba", "matrixStats", "numDeriv", "reldist", "scater", "statmod"]
|
|
},
|
|
"MACSQuantifyR": {
|
|
"name": "MACSQuantifyR",
|
|
"version": "1.18.0",
|
|
"sha256": "0f46dgp5cjakc97zb7rz2fnx5bzb78qfbw2fdc30jv1c9zn849f1",
|
|
"depends": ["ggplot2", "ggrepel", "gridExtra", "lattice", "latticeExtra", "png", "prettydoc", "readxl", "rmarkdown", "rvest", "xml2"]
|
|
},
|
|
"MACSr": {
|
|
"name": "MACSr",
|
|
"version": "1.12.0",
|
|
"sha256": "04qra9rwj3f259k2f8h1v8g8cnkm2ryrr84rq6pmkr9ax0wbym63",
|
|
"depends": ["AnnotationHub", "ExperimentHub", "S4Vectors", "basilisk", "reticulate"]
|
|
},
|
|
"MADSEQ": {
|
|
"name": "MADSEQ",
|
|
"version": "1.30.0",
|
|
"sha256": "0b15wg8nsavl2994clrv72rl6qn5b8pbxk1wqwqcrdab832pd4m7",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VGAM", "VariantAnnotation", "coda", "preprocessCore", "rjags", "rtracklayer", "vcfR", "zlibbioc"]
|
|
},
|
|
"MAGAR": {
|
|
"name": "MAGAR",
|
|
"version": "1.12.0",
|
|
"sha256": "10ki05dffrc9b4ghwjlcc51m9zviyffsldwp5w6m740y9gd0hjcg",
|
|
"depends": ["HDF5Array", "RnBeads", "RnBeads_hg19", "RnBeads_hg38", "UpSetR", "argparse", "bigstatsr", "crlmm", "data_table", "doParallel", "ff", "igraph", "impute", "jsonlite", "plyr", "reshape2", "rjson", "snpStats"]
|
|
},
|
|
"MAGeCKFlute": {
|
|
"name": "MAGeCKFlute",
|
|
"version": "2.8.0",
|
|
"sha256": "1fbwd1wi9z6fgq2whqazyqwm71j7h87dcv4vh3f23yzxm337qpiy",
|
|
"depends": ["Biobase", "DOSE", "clusterProfiler", "depmap", "enrichplot", "ggplot2", "ggrepel", "gridExtra", "msigdbr", "pathview", "reshape2"]
|
|
},
|
|
"MAI": {
|
|
"name": "MAI",
|
|
"version": "1.10.0",
|
|
"sha256": "0fj5q9bbwazicncyxn7940jxkka1m76327cgwl3skj8a1xr6nlfq",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "caret", "doParallel", "e1071", "foreach", "future", "future_apply", "missForest", "pcaMethods", "tidyverse"]
|
|
},
|
|
"MAIT": {
|
|
"name": "MAIT",
|
|
"version": "1.38.0",
|
|
"sha256": "0b33n6n3v88rad6ndpldsz3kb3l35fq7w6vqm5fzd9nxn9h5ayws",
|
|
"depends": ["CAMERA", "MASS", "Rcpp", "agricolae", "caret", "class", "e1071", "gplots", "pls", "plsgenomics", "xcms"]
|
|
},
|
|
"MANOR": {
|
|
"name": "MANOR",
|
|
"version": "1.76.0",
|
|
"sha256": "0mlhv4gy4bxvdm0drwwrm4x48wy0mghzcqhvaw2rhw0h65rmy5ps",
|
|
"depends": ["GLAD"]
|
|
},
|
|
"MAPFX": {
|
|
"name": "MAPFX",
|
|
"version": "1.0.0",
|
|
"sha256": "16iqj70hhsgvnlb8g9z42xplfdsryzlc9cq4ndky01izmqi0ybvx",
|
|
"depends": ["Biobase", "ComplexHeatmap", "RColorBrewer", "Rfast", "circlize", "cowplot", "e1071", "flowCore", "ggplot2", "glmnetUtils", "gtools", "iCellR", "igraph", "pbapply", "reshape2", "stringr", "uwot", "xgboost"]
|
|
},
|
|
"MAST": {
|
|
"name": "MAST",
|
|
"version": "1.30.0",
|
|
"sha256": "1k8an0ifcgx54lqzpim3q37y4rhv57i94i46dlpmdyfghqqw0fny",
|
|
"depends": ["Biobase", "BiocGenerics", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "abind", "data_table", "ggplot2", "plyr", "progress", "reshape2", "stringr"]
|
|
},
|
|
"MBASED": {
|
|
"name": "MBASED",
|
|
"version": "1.38.0",
|
|
"sha256": "1gh12y9l87g01s8f60g82k43pjm4i7zan0l1xnw042qiskz6x92h",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomicRanges", "RUnit", "SummarizedExperiment"]
|
|
},
|
|
"MBAmethyl": {
|
|
"name": "MBAmethyl",
|
|
"version": "1.38.0",
|
|
"sha256": "05p05qp8g23l1c4i9vnkysq1srnzpiq8wc45zzg80hms3ab5qdzp",
|
|
"depends": []
|
|
},
|
|
"MBCB": {
|
|
"name": "MBCB",
|
|
"version": "1.58.0",
|
|
"sha256": "17m8ajwffjl6ldzmlq79hj9s0nkjparpks685jjgmw8gx80q3ln1",
|
|
"depends": ["preprocessCore", "tcltk2"]
|
|
},
|
|
"MBECS": {
|
|
"name": "MBECS",
|
|
"version": "1.8.0",
|
|
"sha256": "15nv5rbw158d071gscms6p42wzf6ibnabiqcq256rcz6j0r69b63",
|
|
"depends": ["Matrix", "cluster", "dplyr", "ggplot2", "gridExtra", "limma", "lme4", "lmerTest", "magrittr", "pheatmap", "phyloseq", "rmarkdown", "ruv", "sva", "tibble", "tidyr", "vegan"]
|
|
},
|
|
"MBQN": {
|
|
"name": "MBQN",
|
|
"version": "2.16.0",
|
|
"sha256": "0c5knn15yiki5vi6ln5f0r4hkq3bnv8da5yqflgbgqwn7fn277cr",
|
|
"depends": ["BiocFileCache", "PairedData", "RCurl", "SummarizedExperiment", "ggplot2", "limma", "preprocessCore", "rappdirs", "rmarkdown", "xml2"]
|
|
},
|
|
"MBttest": {
|
|
"name": "MBttest",
|
|
"version": "1.32.0",
|
|
"sha256": "0qfl0qaw99b1q8j7fq8f1vdkxsjjp6flrg3vwr3bksfi5z58hpzz",
|
|
"depends": ["gplots", "gtools"]
|
|
},
|
|
"MCbiclust": {
|
|
"name": "MCbiclust",
|
|
"version": "1.28.0",
|
|
"sha256": "1alz583dnmm9xvby1fcfkz2pxach6saj2ni5qma1r31ac4sx0b3l",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "GGally", "GO_db", "WGCNA", "cluster", "ggplot2", "org_Hs_eg_db", "scales"]
|
|
},
|
|
"MDTS": {
|
|
"name": "MDTS",
|
|
"version": "1.24.0",
|
|
"sha256": "16mm79gqqwpjfhmx0ppidg05gk7hbzw2d0hgxx9fzpfaixkx2k7p",
|
|
"depends": ["Biostrings", "DNAcopy", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "stringr"]
|
|
},
|
|
"MEAL": {
|
|
"name": "MEAL",
|
|
"version": "1.34.0",
|
|
"sha256": "1njqd9546ggnncmnri8nm9h2cq1wrq075fpng86d994zpgvq2xn8",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomicRanges", "Gviz", "IRanges", "MultiDataSet", "S4Vectors", "SmartSVA", "SummarizedExperiment", "ggplot2", "isva", "limma", "matrixStats", "minfi", "missMethyl", "permute", "vegan"]
|
|
},
|
|
"MEAT": {
|
|
"name": "MEAT",
|
|
"version": "1.16.0",
|
|
"sha256": "0qq5k0xc7vsc32nh6f1qw4cy960rh43a8caqpjprvkfgp9mbvxfg",
|
|
"depends": ["RPMM", "SummarizedExperiment", "dplyr", "dynamicTreeCut", "glmnet", "impute", "minfi", "stringr", "tibble", "wateRmelon"]
|
|
},
|
|
"MEB": {
|
|
"name": "MEB",
|
|
"version": "1.18.0",
|
|
"sha256": "18vhf7f0jx13b8vs4kgm2qli3xxinv9rcm4r8xfd9p1ldmmbh6bn",
|
|
"depends": ["SingleCellExperiment", "SummarizedExperiment", "e1071", "edgeR", "scater", "wrswoR"]
|
|
},
|
|
"MEDIPS": {
|
|
"name": "MEDIPS",
|
|
"version": "1.56.0",
|
|
"sha256": "0lv4x4ms3gabin47lv08rl2igddnr2r9d5xf3w1zaz8d2fj1k1wq",
|
|
"depends": ["BSgenome", "Biostrings", "DNAcopy", "GenomicRanges", "IRanges", "Rsamtools", "biomaRt", "edgeR", "gtools", "preprocessCore", "rtracklayer"]
|
|
},
|
|
"MEDME": {
|
|
"name": "MEDME",
|
|
"version": "1.64.0",
|
|
"sha256": "1zqqbb36qy1ad3fp2b29wm94g0qj95p8aj4jskkj7zca5j01jvzr",
|
|
"depends": ["Biostrings", "MASS", "drc"]
|
|
},
|
|
"MEIGOR": {
|
|
"name": "MEIGOR",
|
|
"version": "1.38.0",
|
|
"sha256": "05k3n6zr75hd76l7v19i88hp0y7x2k2x4nhdwx86ya9gp8xad069",
|
|
"depends": ["CNORode", "Rsolnp", "deSolve", "snowfall"]
|
|
},
|
|
"MGFM": {
|
|
"name": "MGFM",
|
|
"version": "1.38.0",
|
|
"sha256": "0f6j2bq0zv2lfypd4wbbmapgs132k7yzjw11h9rs6c4llhlk5ns2",
|
|
"depends": ["AnnotationDbi", "annotate"]
|
|
},
|
|
"MGFR": {
|
|
"name": "MGFR",
|
|
"version": "1.30.0",
|
|
"sha256": "07g01scd15zprm6ygvj9pjrsj553vk073mjyqvnk6pxy97r7slfa",
|
|
"depends": ["annotate", "biomaRt"]
|
|
},
|
|
"MGnifyR": {
|
|
"name": "MGnifyR",
|
|
"version": "1.0.0",
|
|
"sha256": "0siqjril79bcbs90v7ng1j2rzrs4nl5y4wv1ih2cgp464n8agh6a",
|
|
"depends": ["BiocGenerics", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "TreeSummarizedExperiment", "ape", "dplyr", "httr", "mia", "plyr", "reshape2", "tidyjson", "urltools"]
|
|
},
|
|
"MICSQTL": {
|
|
"name": "MICSQTL",
|
|
"version": "1.2.2",
|
|
"sha256": "141dgc7k28ig9yw6km7ahjp0zyshg4kp3f6bs0ixnv6566dlb4c9",
|
|
"depends": ["BiocParallel", "S4Vectors", "SummarizedExperiment", "TCA", "TOAST", "dirmult", "ggplot2", "ggpubr", "ggridges", "glue", "magrittr", "nnls", "purrr"]
|
|
},
|
|
"MIRA": {
|
|
"name": "MIRA",
|
|
"version": "1.26.0",
|
|
"sha256": "05s4wm7cnjyb1sg6zawp5rxj23ym5kkh95cj79k6cx6l0fb946c0",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "bsseq", "data_table", "ggplot2"]
|
|
},
|
|
"MIRit": {
|
|
"name": "MIRit",
|
|
"version": "1.0.0",
|
|
"sha256": "1c6zz24l2l362lkyha9ls7a990dpvpxskyzxz755zkf0q4cpdyn4",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "BiocParallel", "DESeq2", "MultiAssayExperiment", "Rcpp", "Rgraphviz", "edgeR", "fgsea", "genekitr", "geneset", "ggplot2", "ggpubr", "graph", "graphite", "httr", "limma", "readxl", "rlang"]
|
|
},
|
|
"MLInterfaces": {
|
|
"name": "MLInterfaces",
|
|
"version": "1.84.0",
|
|
"sha256": "1m8clkb5rznzv2fwrl59csq8v0ibqwdm4fphq10b8pmyvj880qpn",
|
|
"depends": ["Biobase", "BiocGenerics", "MASS", "RColorBrewer", "Rcpp", "SummarizedExperiment", "annotate", "cluster", "fpc", "gbm", "gdata", "genefilter", "ggvis", "hwriter", "magrittr", "mlbench", "pls", "rpart", "sfsmisc", "shiny", "threejs"]
|
|
},
|
|
"MLP": {
|
|
"name": "MLP",
|
|
"version": "1.52.0",
|
|
"sha256": "0ij15mcpahgykaalaj954qhk21gd967sngn2ad4wh4h6p99n6902",
|
|
"depends": ["AnnotationDbi", "gplots"]
|
|
},
|
|
"MLSeq": {
|
|
"name": "MLSeq",
|
|
"version": "2.22.0",
|
|
"sha256": "0vm4giqqp2iq1w40nkn4bjc81ppdhqhbxq6w6ps3i2rdzwcq49ir",
|
|
"depends": ["Biobase", "DESeq2", "SummarizedExperiment", "VennDiagram", "caret", "edgeR", "foreach", "ggplot2", "limma", "pamr", "plyr", "sSeq", "testthat", "xtable"]
|
|
},
|
|
"MMDiff2": {
|
|
"name": "MMDiff2",
|
|
"version": "1.32.0",
|
|
"sha256": "0yamcgjb5k77pkv1b0bja5f2i7aqw12wpyppf1mw9s8mqfx3cl0y",
|
|
"depends": ["BSgenome", "Biobase", "Biostrings", "GenomicRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "ggplot2", "locfit", "shiny"]
|
|
},
|
|
"MMUPHin": {
|
|
"name": "MMUPHin",
|
|
"version": "1.18.1",
|
|
"sha256": "0wh998bjbf8zkfrzmrnm8dmm7960w5dnaq1yyc1hl105al0j33aj",
|
|
"depends": ["Maaslin2", "cowplot", "dplyr", "fpc", "ggplot2", "igraph", "metafor", "stringr", "tidyr"]
|
|
},
|
|
"MODA": {
|
|
"name": "MODA",
|
|
"version": "1.30.0",
|
|
"sha256": "1cx3jz8hw1zm68cay84gkxq9wlfwfdm9ms70af6hck4fl2spxj66",
|
|
"depends": ["AMOUNTAIN", "RColorBrewer", "WGCNA", "cluster", "dynamicTreeCut", "igraph"]
|
|
},
|
|
"MOFA2": {
|
|
"name": "MOFA2",
|
|
"version": "1.14.0",
|
|
"sha256": "0sf0vibw44ildxf5rdkqjhw85awl5iz9f62j9z660lf3f8h5v5qq",
|
|
"depends": ["DelayedArray", "HDF5Array", "RColorBrewer", "Rtsne", "basilisk", "corrplot", "cowplot", "dplyr", "forcats", "ggplot2", "ggrepel", "magrittr", "pheatmap", "reshape2", "reticulate", "rhdf5", "stringi", "tidyr", "uwot"]
|
|
},
|
|
"MOGAMUN": {
|
|
"name": "MOGAMUN",
|
|
"version": "1.14.0",
|
|
"sha256": "0l6pbn89a3pp157fbcwpkihmx869afi0qvm16yjac0mrhwspgbk8",
|
|
"depends": ["BiocParallel", "RCy3", "RUnit", "igraph", "stringr"]
|
|
},
|
|
"MOMA": {
|
|
"name": "MOMA",
|
|
"version": "1.16.0",
|
|
"sha256": "1xbacfm9cikdhhb64l068hi4hcpqvh0g573cm8c3jxicxbgp3swv",
|
|
"depends": ["ComplexHeatmap", "MKmisc", "MultiAssayExperiment", "RColorBrewer", "circlize", "cluster", "dplyr", "ggplot2", "magrittr", "qvalue", "readr", "reshape2", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"MOSim": {
|
|
"name": "MOSim",
|
|
"version": "2.0.0",
|
|
"sha256": "0mj53b4m4f2bzspgypiymhk780dcmbrfdrdki46bqjnb124y0c2q",
|
|
"depends": ["HiddenMarkov", "IRanges", "Rcpp", "S4Vectors", "Seurat", "Signac", "cpp11", "dplyr", "edgeR", "ggplot2", "lazyeval", "matrixStats", "rlang", "scran", "stringi", "stringr", "zoo"]
|
|
},
|
|
"MPFE": {
|
|
"name": "MPFE",
|
|
"version": "1.40.0",
|
|
"sha256": "15sj1r9wa0irkym5z527r7s3krk4y5shgffv9w3fcdj90gqclc23",
|
|
"depends": []
|
|
},
|
|
"MPRAnalyze": {
|
|
"name": "MPRAnalyze",
|
|
"version": "1.22.0",
|
|
"sha256": "1gswhf7k4y0g28wv3hjwcrg9ms1g4ky0rxdlzli1in8d4cly7154",
|
|
"depends": ["BiocParallel", "SummarizedExperiment", "progress"]
|
|
},
|
|
"MSA2dist": {
|
|
"name": "MSA2dist",
|
|
"version": "1.8.0",
|
|
"sha256": "0bb37mdw671cc7751wfdsslcaz04i3sbjdp3y11n7yl5pmkx1k6b",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Rcpp", "RcppThread", "ape", "doParallel", "dplyr", "foreach", "pwalign", "rlang", "seqinr", "stringi", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"MSPrep": {
|
|
"name": "MSPrep",
|
|
"version": "1.14.0",
|
|
"sha256": "0856s9a268sv2ablqb6s5gc98dl5z171xik1nk7jpx5vdx9iwj5b",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "VIM", "crmn", "dplyr", "magrittr", "missForest", "pcaMethods", "preprocessCore", "rlang", "stringr", "sva", "tibble", "tidyr"]
|
|
},
|
|
"MSnID": {
|
|
"name": "MSnID",
|
|
"version": "1.38.0",
|
|
"sha256": "0misrm4x4z5h8dfwcrwi24nhcjslqvbyk5n7qz6kf2zcgcwq8q44",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "Biobase", "BiocGenerics", "BiocStyle", "Biostrings", "MSnbase", "ProtGenerics", "RUnit", "R_cache", "Rcpp", "data_table", "doParallel", "dplyr", "foreach", "ggplot2", "iterators", "msmsTests", "mzID", "mzR", "purrr", "reshape2", "rlang", "stringr", "tibble", "xtable"]
|
|
},
|
|
"MSnbase": {
|
|
"name": "MSnbase",
|
|
"version": "2.30.1",
|
|
"sha256": "0cdvi2mjvhj0h8x2rh3kkzrdnmzhr7d9a41m21r6b843a0q7hp6f",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "IRanges", "MALDIquant", "MASS", "MsCoreUtils", "PSMatch", "ProtGenerics", "Rcpp", "S4Vectors", "affy", "digest", "ggplot2", "impute", "lattice", "mzID", "mzR", "pcaMethods", "plyr", "scales", "vsn"]
|
|
},
|
|
"MSstats": {
|
|
"name": "MSstats",
|
|
"version": "4.12.1",
|
|
"sha256": "10dsw777qiaj042mfsram39n4bq0sps18lfgl98wb9y0d67c8xaz",
|
|
"depends": ["MASS", "MSstatsConvert", "Rcpp", "RcppArmadillo", "checkmate", "data_table", "ggplot2", "ggrepel", "gplots", "htmltools", "limma", "lme4", "marray", "plotly", "preprocessCore", "statmod", "survival"]
|
|
},
|
|
"MSstatsBig": {
|
|
"name": "MSstatsBig",
|
|
"version": "1.2.0",
|
|
"sha256": "1az35hsgij1cgpp6pl198dmlw26ddc1npdzaa5g8mwmdijwl3jz1",
|
|
"depends": ["DBI", "MSstats", "MSstatsConvert", "arrow", "dplyr", "readr", "sparklyr"]
|
|
},
|
|
"MSstatsConvert": {
|
|
"name": "MSstatsConvert",
|
|
"version": "1.14.0",
|
|
"sha256": "1q2xwik74qdazqmbh5qqcy21s9nq77jjvrc9qhkh1f0iss0r6pzm",
|
|
"depends": ["checkmate", "data_table", "log4r", "stringi"]
|
|
},
|
|
"MSstatsLOBD": {
|
|
"name": "MSstatsLOBD",
|
|
"version": "1.12.0",
|
|
"sha256": "0jav2x8j07v4zmbwk89l85rycn7k9y0ifb07gzg64v0pkls4341s",
|
|
"depends": ["Rcpp", "ggplot2", "minpack_lm"]
|
|
},
|
|
"MSstatsLiP": {
|
|
"name": "MSstatsLiP",
|
|
"version": "1.10.0",
|
|
"sha256": "1kpfybpzav4bvy3jb2p3ws899mifjr564jqsdy9s4vbk5pphm9j0",
|
|
"depends": ["Biostrings", "MSstats", "MSstatsConvert", "MSstatsPTM", "Rcpp", "checkmate", "data_table", "dplyr", "factoextra", "ggplot2", "ggpubr", "gridExtra", "purrr", "scales", "stringr", "tibble", "tidyr", "tidyverse"]
|
|
},
|
|
"MSstatsPTM": {
|
|
"name": "MSstatsPTM",
|
|
"version": "2.6.0",
|
|
"sha256": "0ivcxd2awrswih6n7is7zkcfrqiihk998g081krcp25i832xfqvh",
|
|
"depends": ["Biostrings", "MSstats", "MSstatsConvert", "MSstatsTMT", "Rcpp", "checkmate", "data_table", "dplyr", "ggplot2", "ggrepel", "gridExtra", "stringi", "stringr"]
|
|
},
|
|
"MSstatsQC": {
|
|
"name": "MSstatsQC",
|
|
"version": "2.22.0",
|
|
"sha256": "0pp813mx6kwmxyyi67qsak09k012nn05pv60ndx8x6dq9ph8aghn",
|
|
"depends": ["MSnbase", "dplyr", "ggExtra", "ggplot2", "plotly", "qcmetrics"]
|
|
},
|
|
"MSstatsQCgui": {
|
|
"name": "MSstatsQCgui",
|
|
"version": "1.24.0",
|
|
"sha256": "0kjidspplam63367yc09a17a3gq52rbmfrcnaxnxpiwkl7mphzz0",
|
|
"depends": ["MSstatsQC", "dplyr", "ggExtra", "gridExtra", "plotly", "shiny"]
|
|
},
|
|
"MSstatsShiny": {
|
|
"name": "MSstatsShiny",
|
|
"version": "1.6.2",
|
|
"sha256": "0h79yy5b9n2kfpbc3fhfajfmrqdzghj3ycaparn1v1dzjmi87z9y",
|
|
"depends": ["DT", "Hmisc", "MSstats", "MSstatsConvert", "MSstatsPTM", "MSstatsTMT", "data_table", "dplyr", "ggplot2", "ggrepel", "gplots", "htmltools", "marray", "mockery", "plotly", "readxl", "shiny", "shinyBS", "shinybusy", "shinyjs", "tidyr", "uuid"]
|
|
},
|
|
"MSstatsTMT": {
|
|
"name": "MSstatsTMT",
|
|
"version": "2.12.1",
|
|
"sha256": "03nnwh5qbr3wd942yj5xa2gd2bk28ncxq2dri3my5gwsrlfxfxpn",
|
|
"depends": ["MSstats", "MSstatsConvert", "checkmate", "data_table", "ggplot2", "htmltools", "limma", "lme4", "lmerTest", "plotly"]
|
|
},
|
|
"MVCClass": {
|
|
"name": "MVCClass",
|
|
"version": "1.78.0",
|
|
"sha256": "1wi6acw51q48v149l72b2pp0iyjrwq1bbmr53y3m609xfadg4qim",
|
|
"depends": []
|
|
},
|
|
"MWASTools": {
|
|
"name": "MWASTools",
|
|
"version": "1.28.0",
|
|
"sha256": "1k72ycx0zlflcfpqapvh9m6mk3vc9wl0pbsi4jbcdigl6vx1zixv",
|
|
"depends": ["ComplexHeatmap", "KEGGREST", "KEGGgraph", "RCurl", "SummarizedExperiment", "boot", "car", "ggplot2", "glm2", "gridExtra", "igraph", "ppcor", "qvalue"]
|
|
},
|
|
"Maaslin2": {
|
|
"name": "Maaslin2",
|
|
"version": "1.18.0",
|
|
"sha256": "0dl6s4lcd40nd7v0d3k3zn0mkm5rlzb8kf2cjxz298mgdif63xqh",
|
|
"depends": ["MASS", "biglm", "car", "chemometrics", "cplm", "data_table", "dplyr", "edgeR", "ggplot2", "glmmTMB", "hash", "lme4", "lmerTest", "logging", "metagenomeSeq", "optparse", "pbapply", "pcaPP", "pheatmap", "pscl", "robustbase", "tibble", "vegan"]
|
|
},
|
|
"Macarron": {
|
|
"name": "Macarron",
|
|
"version": "1.8.1",
|
|
"sha256": "0v1sn04vkrxl0rj8mkq6ibmpsaavplm8hxl94kj4lp6ka81f4sqj",
|
|
"depends": ["BiocParallel", "DelayedArray", "Maaslin2", "RJSONIO", "SummarizedExperiment", "WGCNA", "data_table", "dynamicTreeCut", "ff", "httr", "logging", "plyr", "psych", "xml2"]
|
|
},
|
|
"MantelCorr": {
|
|
"name": "MantelCorr",
|
|
"version": "1.74.0",
|
|
"sha256": "0h1abssaf0c00lsqqm3l4bg0rdsjh3i8famn6hlrigaha62cry7k",
|
|
"depends": []
|
|
},
|
|
"MassArray": {
|
|
"name": "MassArray",
|
|
"version": "1.56.0",
|
|
"sha256": "0xhq3gqx8h7ijfvji66zwrv6fl87mhdwc228nr3x82zh351gd229",
|
|
"depends": []
|
|
},
|
|
"MassSpecWavelet": {
|
|
"name": "MassSpecWavelet",
|
|
"version": "1.70.0",
|
|
"sha256": "0ckvnah0ck5z6calgrwk0k3y1nxpcyn41y84kz5bypzr77x6ssj2",
|
|
"depends": []
|
|
},
|
|
"MatrixGenerics": {
|
|
"name": "MatrixGenerics",
|
|
"version": "1.16.0",
|
|
"sha256": "1r7n5p89460h47mnfh190184dbcmrbj0j5d7dswkfwh6ixan3zyc",
|
|
"depends": ["matrixStats"]
|
|
},
|
|
"MatrixQCvis": {
|
|
"name": "MatrixQCvis",
|
|
"version": "1.12.0",
|
|
"sha256": "0hghmns8i1yhycr18yxp7b7knbdnf1f705z1pic1ql5llzsi8jzj",
|
|
"depends": ["ComplexHeatmap", "ExperimentHub", "Hmisc", "MASS", "Rtsne", "SummarizedExperiment", "UpSetR", "dplyr", "ggplot2", "htmlwidgets", "impute", "imputeLCMD", "limma", "pcaMethods", "plotly", "proDA", "rlang", "rmarkdown", "shiny", "shinydashboard", "shinyhelper", "shinyjs", "tibble", "tidyr", "umap", "vsn"]
|
|
},
|
|
"MatrixRider": {
|
|
"name": "MatrixRider",
|
|
"version": "1.36.0",
|
|
"sha256": "1v1y4z79kb5a9g8sr1mwzc5i9nf7prk07dnyn88048ddd5il2xgw",
|
|
"depends": ["Biostrings", "IRanges", "S4Vectors", "TFBSTools", "XVector"]
|
|
},
|
|
"MeSHDbi": {
|
|
"name": "MeSHDbi",
|
|
"version": "1.40.0",
|
|
"sha256": "0d56i63gcl523715idlm6irspkz3p4xdca0brfys1f56pr55skmw",
|
|
"depends": ["AnnotationDbi", "Biobase", "RSQLite"]
|
|
},
|
|
"MeasurementError_cor": {
|
|
"name": "MeasurementError.cor",
|
|
"version": "1.76.0",
|
|
"sha256": "034n9dfk4a5k4z9g2f90a08rlgk7qgi4i6spp54azlw9gmx4amfs",
|
|
"depends": []
|
|
},
|
|
"Melissa": {
|
|
"name": "Melissa",
|
|
"version": "1.20.0",
|
|
"sha256": "0aswg1balk65rsnxnsdn65x5l5g1dya7z2n8yqr7agzigdw62pdf",
|
|
"depends": ["BPRMeth", "BiocStyle", "GenomicRanges", "MCMCpack", "ROCR", "assertthat", "cowplot", "data_table", "doParallel", "foreach", "ggplot2", "magrittr", "matrixcalc", "mclust", "mvtnorm", "truncnorm"]
|
|
},
|
|
"Mergeomics": {
|
|
"name": "Mergeomics",
|
|
"version": "1.32.0",
|
|
"sha256": "0n5mdnvqqixrrwn1ph89vah81l2afd7wsbsnh5mnhgmm50pjcg1b",
|
|
"depends": []
|
|
},
|
|
"MesKit": {
|
|
"name": "MesKit",
|
|
"version": "1.14.0",
|
|
"sha256": "0r6a200zyp97vjdk78fch5xmvqbqjmhf9n7cc9y911ifll7md35a",
|
|
"depends": ["AnnotationDbi", "Biostrings", "ComplexHeatmap", "IRanges", "RColorBrewer", "S4Vectors", "ape", "circlize", "cowplot", "data_table", "dplyr", "ggplot2", "ggrepel", "ggridges", "mclust", "phangorn", "pracma", "tidyr"]
|
|
},
|
|
"MetCirc": {
|
|
"name": "MetCirc",
|
|
"version": "1.34.0",
|
|
"sha256": "1wkmhlxg3gxfxskhhxrm65y6vriggs34523adrsghx1ra0wgyjvf",
|
|
"depends": ["MsCoreUtils", "S4Vectors", "Spectra", "amap", "circlize", "ggplot2", "scales", "shiny"]
|
|
},
|
|
"MetID": {
|
|
"name": "MetID",
|
|
"version": "1.22.0",
|
|
"sha256": "0i6jpn1q0632klpa6817v9xs2kkdvsajhjv6h1p2f6jdx0smsd64",
|
|
"depends": ["ChemmineR", "Matrix", "devtools", "igraph", "stringr"]
|
|
},
|
|
"MetNet": {
|
|
"name": "MetNet",
|
|
"version": "1.22.0",
|
|
"sha256": "1dpp9z9h3dkbx9k0hxg5dr9178sbs095kyr2ka5sihxm2in0prrg",
|
|
"depends": ["BiocParallel", "GENIE3", "GeneNet", "S4Vectors", "SummarizedExperiment", "bnlearn", "corpcor", "dplyr", "ggplot2", "parmigene", "psych", "rlang", "stabs", "tibble", "tidyr"]
|
|
},
|
|
"MetaCyto": {
|
|
"name": "MetaCyto",
|
|
"version": "1.26.0",
|
|
"sha256": "15yd35ql64ca9ixv6rcq9v6gaaxis9nzx4q2jdij3facrb2ryyfk",
|
|
"depends": ["FlowSOM", "cluster", "fastcluster", "flowCore", "ggplot2", "metafor", "tidyr"]
|
|
},
|
|
"MetaNeighbor": {
|
|
"name": "MetaNeighbor",
|
|
"version": "1.24.0",
|
|
"sha256": "0sz15njb0y9vcmbv89k3x2sw4px8nmy3qhqkvyl69kxlcqdicgxi",
|
|
"depends": ["Matrix", "RColorBrewer", "SingleCellExperiment", "SummarizedExperiment", "beanplot", "dplyr", "ggplot2", "gplots", "igraph", "matrixStats", "tibble", "tidyr"]
|
|
},
|
|
"MetaPhOR": {
|
|
"name": "MetaPhOR",
|
|
"version": "1.6.0",
|
|
"sha256": "0r3zqb7rmw5fnwm6hkpy22gndpn4jd24471acqfsi3a894g0868p",
|
|
"depends": ["RCy3", "RecordLinkage", "clusterProfiler", "ggplot2", "ggrepel", "pheatmap", "stringr"]
|
|
},
|
|
"MetaboAnnotation": {
|
|
"name": "MetaboAnnotation",
|
|
"version": "1.8.1",
|
|
"sha256": "0lsrhyyqsdz27mc6vl0aj78bdj3xh5i3h3dsg9smkhg2m22h3sdf",
|
|
"depends": ["AnnotationHub", "BiocGenerics", "BiocParallel", "CompoundDb", "MetaboCoreUtils", "MsCoreUtils", "ProtGenerics", "QFeatures", "S4Vectors", "Spectra", "SummarizedExperiment"]
|
|
},
|
|
"MetaboCoreUtils": {
|
|
"name": "MetaboCoreUtils",
|
|
"version": "1.12.0",
|
|
"sha256": "1y5lq1x60pcvxsl8dim5plzd3y4bqjkcam5hv9614xw0sr4h0r04",
|
|
"depends": ["BiocParallel", "MsCoreUtils"]
|
|
},
|
|
"MetaboSignal": {
|
|
"name": "MetaboSignal",
|
|
"version": "1.34.0",
|
|
"sha256": "0ldi6qs0hfnwlpvwc0v0yn3j6gms4kgays8f5fap8vj8nw2gljbj",
|
|
"depends": ["AnnotationDbi", "EnsDb_Hsapiens_v75", "KEGGREST", "KEGGgraph", "MWASTools", "RCurl", "biomaRt", "hpar", "igraph", "mygene", "org_Hs_eg_db"]
|
|
},
|
|
"MethPed": {
|
|
"name": "MethPed",
|
|
"version": "1.32.0",
|
|
"sha256": "13hwdxvmczzr77572pws58590lk09z6sda8144qxlljy4y5ii7zw",
|
|
"depends": ["Biobase", "randomForest"]
|
|
},
|
|
"MethReg": {
|
|
"name": "MethReg",
|
|
"version": "1.14.0",
|
|
"sha256": "1fzbrp09d57s2zvxl7jsc8dqwchz43xl0vnxkj2r0q0knlpsbbr2",
|
|
"depends": ["AnnotationHub", "DelayedArray", "ExperimentHub", "GenomicRanges", "IRanges", "JASPAR2024", "MASS", "Matrix", "RSQLite", "S4Vectors", "SummarizedExperiment", "TFBSTools", "dplyr", "ggplot2", "ggpubr", "openxlsx", "plyr", "progress", "pscl", "readr", "rlang", "sesame", "sesameData", "sfsmisc", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"MethTargetedNGS": {
|
|
"name": "MethTargetedNGS",
|
|
"version": "1.36.0",
|
|
"sha256": "15bw9bxg99bfmwgfi45qgrp5dk15k44i0s6jp34kwnxkp18010ab",
|
|
"depends": ["Biostrings", "gplots", "pwalign", "seqinr", "stringr"]
|
|
},
|
|
"MethylAid": {
|
|
"name": "MethylAid",
|
|
"version": "1.38.0",
|
|
"sha256": "084mnllaj6qp5ai5bmj6wgc90bs270qbzl60sch1f863x8fv9lzr",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "RColorBrewer", "SummarizedExperiment", "ggplot2", "gridBase", "hexbin", "matrixStats", "minfi", "shiny"]
|
|
},
|
|
"MethylMix": {
|
|
"name": "MethylMix",
|
|
"version": "2.34.0",
|
|
"sha256": "1mdhqqlbkh24bqz0bxvzih2cnl38nyacrfhsz8mq8ky2j5rsrbg0",
|
|
"depends": ["RColorBrewer", "RCurl", "RPMM", "R_matlab", "data_table", "digest", "foreach", "ggplot2", "impute", "limma"]
|
|
},
|
|
"MethylSeekR": {
|
|
"name": "MethylSeekR",
|
|
"version": "1.44.0",
|
|
"sha256": "10b3m0d5z426p74x4hjg4imqg8iic0xjjnjcllwphy0ylk3cpzd5",
|
|
"depends": ["BSgenome", "GenomicRanges", "IRanges", "geneplotter", "mhsmm", "rtracklayer"]
|
|
},
|
|
"Mfuzz": {
|
|
"name": "Mfuzz",
|
|
"version": "2.64.0",
|
|
"sha256": "00sx63bg5qw22vw0yw3syhyl5ffjrqvf81b9ksgw2p0z3yiiss5h",
|
|
"depends": ["Biobase", "e1071", "tkWidgets"]
|
|
},
|
|
"MiChip": {
|
|
"name": "MiChip",
|
|
"version": "1.58.0",
|
|
"sha256": "0mmb63h29l6xhwwxxlnz6a0p04wsxlskagih11rwmwnwm0blv68k",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"MiPP": {
|
|
"name": "MiPP",
|
|
"version": "1.76.0",
|
|
"sha256": "12wk4kk7qbba3681ikldivs3np9qvvl0mivqds0dd6l52v1ngj9p",
|
|
"depends": ["Biobase", "MASS", "e1071"]
|
|
},
|
|
"MiRaGE": {
|
|
"name": "MiRaGE",
|
|
"version": "1.46.0",
|
|
"sha256": "17c3rrq9h2mlhqjcjiyzg88d1giks9iq2vdlsvv6fg9cl4wqpvg1",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocManager", "S4Vectors"]
|
|
},
|
|
"MicrobiomeProfiler": {
|
|
"name": "MicrobiomeProfiler",
|
|
"version": "1.10.0",
|
|
"sha256": "1xz2s2alz61s5hp5fq42m5n3bby89lyp5mr7pgav8xkyiglk471f",
|
|
"depends": ["DT", "clusterProfiler", "config", "enrichplot", "ggplot2", "golem", "gson", "htmltools", "magrittr", "shiny", "shinyWidgets", "shinycustomloader"]
|
|
},
|
|
"MicrobiotaProcess": {
|
|
"name": "MicrobiotaProcess",
|
|
"version": "1.16.1",
|
|
"sha256": "1x0yjxzdri6x1yin0d54r9wx48y3x2vy79wnkg37i070ira5hddw",
|
|
"depends": ["Biostrings", "MASS", "SummarizedExperiment", "ape", "cli", "coin", "data_table", "dplyr", "dtplyr", "foreach", "ggfun", "ggplot2", "ggrepel", "ggsignif", "ggstar", "ggtree", "ggtreeExtra", "magrittr", "patchwork", "pillar", "plyr", "rlang", "tibble", "tidyr", "tidyselect", "tidytree", "treeio", "vegan", "zoo"]
|
|
},
|
|
"MineICA": {
|
|
"name": "MineICA",
|
|
"version": "1.44.0",
|
|
"sha256": "1qzqfnrf23lrlxmds8hjblj169sylq1m9h07vwlz5zik5mxj6y90",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "GOstats", "Hmisc", "JADE", "RColorBrewer", "Rgraphviz", "annotate", "biomaRt", "cluster", "colorspace", "fastICA", "foreach", "fpc", "ggplot2", "graph", "gtools", "igraph", "lumi", "lumiHumanAll_db", "marray", "mclust", "plyr", "scales", "xtable"]
|
|
},
|
|
"MinimumDistance": {
|
|
"name": "MinimumDistance",
|
|
"version": "1.48.0",
|
|
"sha256": "1pqf2q5hxjb1dwg981aldl0sw10f86yszp6z511vzx1y70ca6j3h",
|
|
"depends": ["Biobase", "BiocGenerics", "DNAcopy", "GenomeInfoDb", "GenomicRanges", "IRanges", "MatrixGenerics", "S4Vectors", "SummarizedExperiment", "VanillaICE", "data_table", "ff", "foreach", "lattice", "matrixStats", "oligoClasses"]
|
|
},
|
|
"ModCon": {
|
|
"name": "ModCon",
|
|
"version": "1.12.0",
|
|
"sha256": "06v2ka7rhiqnjdgb7ky6ps2b90j29y1yqsvkk24a6nsd2q8gpkil",
|
|
"depends": ["data_table"]
|
|
},
|
|
"Modstrings": {
|
|
"name": "Modstrings",
|
|
"version": "1.20.0",
|
|
"sha256": "0yc8gsgxlww2g9z1m6jl02aqmama10fkr2mvibvdi01s5pqwdbky",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "IRanges", "S4Vectors", "XVector", "crayon", "stringi", "stringr"]
|
|
},
|
|
"MoleculeExperiment": {
|
|
"name": "MoleculeExperiment",
|
|
"version": "1.4.1",
|
|
"sha256": "0w539058lm99z53lkjf9ljk1dr4fp150a9cwa9s9xrax90wpmy6j",
|
|
"depends": ["BiocParallel", "EBImage", "Matrix", "S4Vectors", "SpatialExperiment", "cli", "data_table", "dplyr", "ggplot2", "magrittr", "purrr", "rhdf5", "rjson", "rlang", "terra"]
|
|
},
|
|
"Moonlight2R": {
|
|
"name": "Moonlight2R",
|
|
"version": "1.2.0",
|
|
"sha256": "0ff37hjp3llf875z4wym60vanda6gbysqmcp90dcbl33bx0fynja",
|
|
"depends": ["AnnotationHub", "Biobase", "BiocGenerics", "ComplexHeatmap", "DOSE", "EpiMix", "ExperimentHub", "GEOquery", "GenomicRanges", "HiveR", "RColorBrewer", "RISmed", "circlize", "clusterProfiler", "doParallel", "dplyr", "easyPubMed", "foreach", "fuzzyjoin", "ggplot2", "gplots", "magrittr", "org_Hs_eg_db", "parmigene", "purrr", "qpdf", "randomForest", "readr", "rtracklayer", "seqminer", "stringr", "tibble", "tidyHeatmap", "tidyr"]
|
|
},
|
|
"MoonlightR": {
|
|
"name": "MoonlightR",
|
|
"version": "1.30.0",
|
|
"sha256": "0jhc7y01qrz3cg2jnjqwgi5cgrh6616q9k3f3hldkq0x6z0z1vwn",
|
|
"depends": ["Biobase", "DOSE", "GEOquery", "HiveR", "RColorBrewer", "RISmed", "SummarizedExperiment", "TCGAbiolinks", "circlize", "clusterProfiler", "doParallel", "foreach", "gplots", "limma", "parmigene", "randomForest"]
|
|
},
|
|
"Motif2Site": {
|
|
"name": "Motif2Site",
|
|
"version": "1.8.0",
|
|
"sha256": "03rjhrxi016q0k7dzbfwr192sgc6z5kjyqdd6qzdajkpgq6dpi2m",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "edgeR", "mixtools"]
|
|
},
|
|
"MotifDb": {
|
|
"name": "MotifDb",
|
|
"version": "1.46.0",
|
|
"sha256": "1m8y76gg80625xz9g9101mfq19glk37p792yzz46807f7g6m8zbh",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "IRanges", "S4Vectors", "rtracklayer", "splitstackshape"]
|
|
},
|
|
"MouseFM": {
|
|
"name": "MouseFM",
|
|
"version": "1.14.0",
|
|
"sha256": "0vwccf4fj664vbl0ggps51rac42j7xs5m33szhwdqpik6p2hyz7j",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "biomaRt", "curl", "data_table", "dplyr", "ggplot2", "gtools", "httr", "jsonlite", "reshape2", "rlist", "scales", "tidyr"]
|
|
},
|
|
"MsBackendMassbank": {
|
|
"name": "MsBackendMassbank",
|
|
"version": "1.12.0",
|
|
"sha256": "0sj378b6jphfamr3850k8f5f22mr50i9r1d94jz2js7y1az10rim",
|
|
"depends": ["BiocParallel", "DBI", "IRanges", "MsCoreUtils", "ProtGenerics", "S4Vectors", "Spectra"]
|
|
},
|
|
"MsBackendMgf": {
|
|
"name": "MsBackendMgf",
|
|
"version": "1.12.0",
|
|
"sha256": "1rphxis1jxd6295sab0lyx96h3rflwmrz5x1iqzn6pfyzgcr67rz",
|
|
"depends": ["BiocParallel", "IRanges", "MsCoreUtils", "ProtGenerics", "S4Vectors", "Spectra"]
|
|
},
|
|
"MsBackendMsp": {
|
|
"name": "MsBackendMsp",
|
|
"version": "1.8.0",
|
|
"sha256": "1y80r12xsiw678mkjq5x9j9yp4l36w1hv9qxlac6bbhsp4kpbwi4",
|
|
"depends": ["BiocParallel", "IRanges", "MsCoreUtils", "ProtGenerics", "S4Vectors", "Spectra"]
|
|
},
|
|
"MsBackendRawFileReader": {
|
|
"name": "MsBackendRawFileReader",
|
|
"version": "1.10.0",
|
|
"sha256": "17xnbhnvz28ksfw51aba9p9wl5q0y7wl88yxsdhjwc58f3h8a1rn",
|
|
"depends": ["BiocParallel", "IRanges", "MsCoreUtils", "ProtGenerics", "S4Vectors", "Spectra", "rawrr"]
|
|
},
|
|
"MsBackendSql": {
|
|
"name": "MsBackendSql",
|
|
"version": "1.4.0",
|
|
"sha256": "1ng4ns03a8lbb63rczcl1j9c780vqnhc3plj5v3602xmnrxpadrl",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DBI", "IRanges", "MsCoreUtils", "ProtGenerics", "S4Vectors", "Spectra", "data_table", "progress"]
|
|
},
|
|
"MsCoreUtils": {
|
|
"name": "MsCoreUtils",
|
|
"version": "1.16.1",
|
|
"sha256": "1fjc0drsdkl9cyrq5k2kskb70x63mazbhpmlk9q7v77769v64gxb",
|
|
"depends": ["MASS", "Rcpp", "S4Vectors", "clue"]
|
|
},
|
|
"MsDataHub": {
|
|
"name": "MsDataHub",
|
|
"version": "1.4.0",
|
|
"sha256": "1kxcf7pz8vfidzjqb0czc9znml5nj4bqrbiwrx2j13igrf5v6jnh",
|
|
"depends": ["ExperimentHub"]
|
|
},
|
|
"MsExperiment": {
|
|
"name": "MsExperiment",
|
|
"version": "1.6.0",
|
|
"sha256": "0dxv3jw5aj1i73vqrp3c031pj26i7rp0q2zs4nq3x1vni349506d",
|
|
"depends": ["BiocGenerics", "DBI", "IRanges", "ProtGenerics", "QFeatures", "S4Vectors", "Spectra", "SummarizedExperiment"]
|
|
},
|
|
"MsFeatures": {
|
|
"name": "MsFeatures",
|
|
"version": "1.12.0",
|
|
"sha256": "1prn45vlacj69388psimy0w05a84y8sdry6678pz611sd0ks1gka",
|
|
"depends": ["MsCoreUtils", "ProtGenerics", "SummarizedExperiment"]
|
|
},
|
|
"MsQuality": {
|
|
"name": "MsQuality",
|
|
"version": "1.4.0",
|
|
"sha256": "1khpjzzrrd2b7ngwq43y3sgndmrr6l8f504lyakr46xr1vyzppsl",
|
|
"depends": ["BiocParallel", "MsExperiment", "ProtGenerics", "Spectra", "ggplot2", "htmlwidgets", "msdata", "plotly", "rlang", "rmzqc", "shiny", "shinydashboard", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"MuData": {
|
|
"name": "MuData",
|
|
"version": "1.8.0",
|
|
"sha256": "0kjin6cfw9aipghd0imi2play19czplwcz2gi5akv6gk9wy98k8x",
|
|
"depends": ["DelayedArray", "Matrix", "MultiAssayExperiment", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "rhdf5"]
|
|
},
|
|
"Mulcom": {
|
|
"name": "Mulcom",
|
|
"version": "1.54.0",
|
|
"sha256": "1sb6g08k1wlnjiiw9a7hm34izbnh8ar1mh6vxc0jzkwk6522nva2",
|
|
"depends": ["Biobase", "fields"]
|
|
},
|
|
"MultiAssayExperiment": {
|
|
"name": "MultiAssayExperiment",
|
|
"version": "1.30.3",
|
|
"sha256": "0spws2kawf5rqhp5h5wi46sa07c2yhhnjhdxpmxz8gkvqsvdjqkp",
|
|
"depends": ["Biobase", "BiocBaseUtils", "BiocGenerics", "DelayedArray", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "tidyr"]
|
|
},
|
|
"MultiBaC": {
|
|
"name": "MultiBaC",
|
|
"version": "1.14.0",
|
|
"sha256": "0m08620sii9181y0vlcrw9nbcnp4vnjjxvp96iqlgg5fsb23wbl7",
|
|
"depends": ["Matrix", "MultiAssayExperiment", "ggplot2", "pcaMethods", "plotrix", "ropls"]
|
|
},
|
|
"MultiDataSet": {
|
|
"name": "MultiDataSet",
|
|
"version": "1.32.0",
|
|
"sha256": "1y1j5svi52cvixjsn13122kvd0z0c7zfki3p6rr8wjd5w7riiyqw",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "ggplot2", "ggrepel", "limma", "qqman"]
|
|
},
|
|
"MultiMed": {
|
|
"name": "MultiMed",
|
|
"version": "2.26.0",
|
|
"sha256": "03qcqzkh5jiy46613g29bs7dipgzzparwdcllw1lwssh4y8fvwc0",
|
|
"depends": []
|
|
},
|
|
"MultiRNAflow": {
|
|
"name": "MultiRNAflow",
|
|
"version": "1.2.0",
|
|
"sha256": "0i7zs0gd8p927zcdsx85wdk3wi4ywg4s4y3ichqqidqs01hdxccd",
|
|
"depends": ["Biobase", "ComplexHeatmap", "DESeq2", "FactoMineR", "Mfuzz", "S4Vectors", "SummarizedExperiment", "UpSetR", "factoextra", "ggalluvial", "ggplot2", "ggplotify", "ggrepel", "gprofiler2", "plot3D", "plot3Drgl", "reshape2"]
|
|
},
|
|
"MultimodalExperiment": {
|
|
"name": "MultimodalExperiment",
|
|
"version": "1.4.0",
|
|
"sha256": "0zik59sh26ycbsagcvwzhb9g4aqvkbygigpzy8d9i0gss0rvvljp",
|
|
"depends": ["BiocGenerics", "IRanges", "MultiAssayExperiment", "S4Vectors"]
|
|
},
|
|
"MungeSumstats": {
|
|
"name": "MungeSumstats",
|
|
"version": "1.12.2",
|
|
"sha256": "0qgcvdhb3z1380jfb3wl81kq9lgm90s6hnbkbrv3psn3bsgs78mi",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "RCurl", "R_utils", "VariantAnnotation", "data_table", "dplyr", "googleAuthR", "httr", "jsonlite", "magrittr", "rtracklayer", "stringr"]
|
|
},
|
|
"MutationalPatterns": {
|
|
"name": "MutationalPatterns",
|
|
"version": "3.14.0",
|
|
"sha256": "0smf4l023ckwsm5ckrqqw7kjyi1awp378mzhab7v8nk9n5smsj61",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "NMF", "RColorBrewer", "S4Vectors", "VariantAnnotation", "cowplot", "dplyr", "ggalluvial", "ggdendro", "ggplot2", "magrittr", "pracma", "purrr", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"NADfinder": {
|
|
"name": "NADfinder",
|
|
"version": "1.28.0",
|
|
"sha256": "18bq7jf7f89263s4f4ib3qzlpwxsp181zjjm0cblkhjs7lw8p2zh",
|
|
"depends": ["ATACseqQC", "BiocGenerics", "EmpiricalBrownsMethod", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "baseline", "corrplot", "csaw", "limma", "metap", "rtracklayer", "signal", "trackViewer"]
|
|
},
|
|
"NBAMSeq": {
|
|
"name": "NBAMSeq",
|
|
"version": "1.20.0",
|
|
"sha256": "1iglbxv7wcgn7lwah8jd1q7gsrqjr3874nivl1msla35hkqw4v9a",
|
|
"depends": ["BiocParallel", "DESeq2", "S4Vectors", "SummarizedExperiment", "genefilter", "mgcv"]
|
|
},
|
|
"NCIgraph": {
|
|
"name": "NCIgraph",
|
|
"version": "1.52.0",
|
|
"sha256": "16kkg568hdjsn4jq9hd9gl1n31wavshn79bpwhg5jxci288zgai0",
|
|
"depends": ["KEGGgraph", "RBGL", "RCy3", "R_oo", "graph"]
|
|
},
|
|
"NOISeq": {
|
|
"name": "NOISeq",
|
|
"version": "2.48.0",
|
|
"sha256": "1aph4phg58f4kpgavrxnn6dzh3lgms8sbjvip4f3gn8xs0p01mbz",
|
|
"depends": ["Biobase", "Matrix"]
|
|
},
|
|
"NPARC": {
|
|
"name": "NPARC",
|
|
"version": "1.16.0",
|
|
"sha256": "0giq5nxqnsqppz12adln7kvdb8lifch57wg6avdl88xrdzpl3vfw",
|
|
"depends": ["BiocParallel", "MASS", "broom", "dplyr", "magrittr", "rlang", "tidyr"]
|
|
},
|
|
"NTW": {
|
|
"name": "NTW",
|
|
"version": "1.54.0",
|
|
"sha256": "1knkqrs3rlhl9qvp6670hc7qhgyi6pmcs47xcivpn2jk6ss00xhk",
|
|
"depends": ["mvtnorm"]
|
|
},
|
|
"NanoMethViz": {
|
|
"name": "NanoMethViz",
|
|
"version": "3.0.2",
|
|
"sha256": "0nlbkikmxdq08m24sch8cy10m63v33536p5rx1zy5c4f4pa86yrw",
|
|
"depends": ["AnnotationDbi", "BiocSingular", "Biostrings", "GenomicRanges", "IRanges", "R_utils", "Rcpp", "Rsamtools", "S4Vectors", "SummarizedExperiment", "assertthat", "bsseq", "cli", "cpp11", "data_table", "dbscan", "dplyr", "e1071", "forcats", "fs", "ggplot2", "ggrastr", "glue", "limma", "patchwork", "purrr", "readr", "rlang", "scales", "scico", "stringr", "tibble", "tidyr", "withr", "zlibbioc"]
|
|
},
|
|
"NanoStringDiff": {
|
|
"name": "NanoStringDiff",
|
|
"version": "1.34.0",
|
|
"sha256": "0rasmzc12xl6mh9l2989wgp9q30665iqqgxr1fy6r57j7hixwbc1",
|
|
"depends": ["Biobase", "Rcpp", "matrixStats"]
|
|
},
|
|
"NanoStringNCTools": {
|
|
"name": "NanoStringNCTools",
|
|
"version": "1.12.0",
|
|
"sha256": "1n1zc99v5xzd89q512v24wa7gmbgdp8g9aixvh6cjismah0vpgjr",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "IRanges", "RColorBrewer", "S4Vectors", "ggbeeswarm", "ggiraph", "ggplot2", "ggthemes", "pheatmap"]
|
|
},
|
|
"NanoTube": {
|
|
"name": "NanoTube",
|
|
"version": "1.10.0",
|
|
"sha256": "1i5fs2lkqmyl0hb1s6f56z3wmwhmvw2mkygl3ibn0qwfh460l4f1",
|
|
"depends": ["Biobase", "fgsea", "ggplot2", "limma", "reshape"]
|
|
},
|
|
"Nebulosa": {
|
|
"name": "Nebulosa",
|
|
"version": "1.14.0",
|
|
"sha256": "0m5z6rribsrk9mzcksjh0nmpf4d0x0hn8jd80h0hj0hj8sj1ifgv",
|
|
"depends": ["Matrix", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "ggrastr", "ks", "patchwork"]
|
|
},
|
|
"NetActivity": {
|
|
"name": "NetActivity",
|
|
"version": "1.6.0",
|
|
"sha256": "0hssxa9i5c090929mnjs7nqn56fmg7qhq0iknfrl9d0wvpibm3bh",
|
|
"depends": ["DESeq2", "DelayedArray", "DelayedMatrixStats", "NetActivityData", "SummarizedExperiment", "airway"]
|
|
},
|
|
"NetPathMiner": {
|
|
"name": "NetPathMiner",
|
|
"version": "1.40.0",
|
|
"sha256": "1fv4ijiksp2ff5sxjgp1bfzxfcqr853nrsdgfn0i8zqz9ba20a6p",
|
|
"depends": ["igraph"]
|
|
},
|
|
"NetSAM": {
|
|
"name": "NetSAM",
|
|
"version": "1.44.0",
|
|
"sha256": "07l5cgl72mkh3j96lciwalsb0ps0bs7rfxzm78m5279palawf6vb",
|
|
"depends": ["AnnotationDbi", "DBI", "GO_db", "R2HTML", "WGCNA", "biomaRt", "doParallel", "foreach", "igraph", "seriation", "survival"]
|
|
},
|
|
"NeuCA": {
|
|
"name": "NeuCA",
|
|
"version": "1.10.0",
|
|
"sha256": "0k5bqdrja3x238fyrd7dm5jm94igh25b0ipb2zj6scpa4m15n67l",
|
|
"depends": ["SingleCellExperiment", "e1071", "kableExtra", "keras", "limma"]
|
|
},
|
|
"NewWave": {
|
|
"name": "NewWave",
|
|
"version": "1.14.0",
|
|
"sha256": "03m6dd0p2d542k36jwvz9ik8cddw1q3dz9ghqy0w1dbf685r0kf0",
|
|
"depends": ["BiocSingular", "DelayedArray", "Matrix", "SharedObject", "SingleCellExperiment", "SummarizedExperiment", "irlba"]
|
|
},
|
|
"NoRCE": {
|
|
"name": "NoRCE",
|
|
"version": "1.16.0",
|
|
"sha256": "0di23zmjfba4nmbbkcn2xhqamxxn4hfkhyh3skc46b66rl1yjy3n",
|
|
"depends": ["AnnotationDbi", "DBI", "GO_db", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "KEGGREST", "RCurl", "RSQLite", "S4Vectors", "SummarizedExperiment", "biomaRt", "dbplyr", "dplyr", "ggplot2", "igraph", "png", "rWikiPathways", "reactome_db", "readr", "reshape2", "rtracklayer", "stringr", "tidyr", "zlibbioc"]
|
|
},
|
|
"NormalyzerDE": {
|
|
"name": "NormalyzerDE",
|
|
"version": "1.22.0",
|
|
"sha256": "1kiwyf8fkdp7bml4b5f32schyl0s5c0b1ag4g826rakh487sb69b",
|
|
"depends": ["Biobase", "MASS", "SummarizedExperiment", "ape", "car", "ggforce", "ggplot2", "limma", "matrixStats", "preprocessCore", "vsn"]
|
|
},
|
|
"NormqPCR": {
|
|
"name": "NormqPCR",
|
|
"version": "1.50.0",
|
|
"sha256": "1fl7qm6qmzxvv41qd1y8ds3r6dqk39rqgh6sl8imbggmnpb27j9h",
|
|
"depends": ["Biobase", "RColorBrewer", "ReadqPCR", "qpcR"]
|
|
},
|
|
"NuPoP": {
|
|
"name": "NuPoP",
|
|
"version": "2.12.0",
|
|
"sha256": "1w6q7ms57wixw5w3fx74qc6l8mgcklysqq1s6jg69mipwgch62hm",
|
|
"depends": []
|
|
},
|
|
"OCplus": {
|
|
"name": "OCplus",
|
|
"version": "1.78.0",
|
|
"sha256": "0bqa1rml6vj6sw27pxlhjjsfx2cyi2lv6v4hykdcc8kgh8a1r8dm",
|
|
"depends": ["interp", "multtest"]
|
|
},
|
|
"OGRE": {
|
|
"name": "OGRE",
|
|
"version": "1.8.0",
|
|
"sha256": "07xkprp1hjhavj9d360yhybpq9ghz0wxwaxlicpidm788nvksxqv",
|
|
"depends": ["AnnotationHub", "DT", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "S4Vectors", "assertthat", "data_table", "ggplot2", "rtracklayer", "shiny", "shinyBS", "shinyFiles", "shinydashboard", "tidyr"]
|
|
},
|
|
"OLIN": {
|
|
"name": "OLIN",
|
|
"version": "1.82.0",
|
|
"sha256": "05s28by46adrizrglfsr9m26jiygkyp0dabdr62nasjmqzidwf80",
|
|
"depends": ["limma", "locfit", "marray"]
|
|
},
|
|
"OLINgui": {
|
|
"name": "OLINgui",
|
|
"version": "1.78.0",
|
|
"sha256": "0fcpy0g95l0h2id13dra46zyphyjdh2m7gw9i38i5jnr4arhy95z",
|
|
"depends": ["OLIN", "marray", "tkWidgets", "widgetTools"]
|
|
},
|
|
"OMICsPCA": {
|
|
"name": "OMICsPCA",
|
|
"version": "1.22.0",
|
|
"sha256": "0m5b6msnkvvv0lpj8zm976yqa5pd2vzkhpgzx58f95dbcaxpxflq",
|
|
"depends": ["FactoMineR", "GenomeInfoDb", "HelloRanges", "IRanges", "MASS", "MultiAssayExperiment", "NbClust", "OMICsPCAdata", "PerformanceAnalytics", "clValid", "cluster", "corrplot", "cowplot", "data_table", "factoextra", "fpc", "ggplot2", "kableExtra", "magick", "pdftools", "reshape2", "rgl", "rmarkdown", "rtracklayer", "tidyr"]
|
|
},
|
|
"OPWeight": {
|
|
"name": "OPWeight",
|
|
"version": "1.26.0",
|
|
"sha256": "11lrks7wrvzi3i0f1hnky386x60j5vnz8i73dng1fzb64n41mla8",
|
|
"depends": ["MASS", "qvalue", "tibble"]
|
|
},
|
|
"ORFhunteR": {
|
|
"name": "ORFhunteR",
|
|
"version": "1.12.0",
|
|
"sha256": "0ahs8j1qlfxblkbvxfd9836l72icr8lqaywpih9s4slx6j38l53p",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg38", "Biostrings", "Peptides", "Rcpp", "data_table", "randomForest", "rtracklayer", "stringr", "xfun"]
|
|
},
|
|
"ORFik": {
|
|
"name": "ORFik",
|
|
"version": "1.24.0",
|
|
"sha256": "0cm1rb4l0kciw8h1555qbixh9krwdnbgbvrb4dq753yjc3wdizfx",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocFileCache", "BiocGenerics", "BiocParallel", "Biostrings", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RCurl", "R_utils", "Rcpp", "Rsamtools", "S4Vectors", "SummarizedExperiment", "XML", "biomaRt", "biomartr", "cowplot", "curl", "data_table", "downloader", "fst", "ggplot2", "gridExtra", "httr", "jsonlite", "rtracklayer", "txdbmaker", "withr", "xml2"]
|
|
},
|
|
"OSAT": {
|
|
"name": "OSAT",
|
|
"version": "1.52.0",
|
|
"sha256": "0bap6n61wzrkbl1cvlfwrnzgvdgkfzfa37fb5r22ynyv847jhl7n",
|
|
"depends": []
|
|
},
|
|
"OTUbase": {
|
|
"name": "OTUbase",
|
|
"version": "1.54.0",
|
|
"sha256": "02hbz9xhhmggbvkgc41s91fwd9xr7li0215mn1axbfcr7dxppziq",
|
|
"depends": ["Biobase", "Biostrings", "IRanges", "S4Vectors", "ShortRead", "vegan"]
|
|
},
|
|
"OUTRIDER": {
|
|
"name": "OUTRIDER",
|
|
"version": "1.22.0",
|
|
"sha256": "1zdv48ms62sy6pv24xnx5jf0286dr68zglckl38na2gvqymn8zj4",
|
|
"depends": ["BBmisc", "BiocGenerics", "BiocParallel", "DESeq2", "GenomicFeatures", "GenomicRanges", "IRanges", "PRROC", "RColorBrewer", "Rcpp", "RcppArmadillo", "S4Vectors", "SummarizedExperiment", "data_table", "generics", "ggplot2", "ggrepel", "heatmaply", "matrixStats", "pcaMethods", "pheatmap", "plotly", "plyr", "reshape2", "scales", "txdbmaker"]
|
|
},
|
|
"OVESEG": {
|
|
"name": "OVESEG",
|
|
"version": "1.20.0",
|
|
"sha256": "0bj2d8i5b9y3zrcpm7qapdywd1s3zgqiikz4by1l7832z7r2imyx",
|
|
"depends": ["BiocParallel", "Rcpp", "SummarizedExperiment", "fdrtool", "limma"]
|
|
},
|
|
"OmaDB": {
|
|
"name": "OmaDB",
|
|
"version": "2.20.0",
|
|
"sha256": "093hqayqa0gb3m6yckqa75i9ha9laxlkpjj4y64nzgja1ny2g17b",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "ape", "httr", "jsonlite", "plyr", "topGO"]
|
|
},
|
|
"OmicCircos": {
|
|
"name": "OmicCircos",
|
|
"version": "1.42.0",
|
|
"sha256": "0iqq9ds69vlm7fhhd72cvnj4pg07g6c2rkhvbbl6r1w8z33b26hs",
|
|
"depends": ["GenomicRanges"]
|
|
},
|
|
"Omixer": {
|
|
"name": "Omixer",
|
|
"version": "1.14.0",
|
|
"sha256": "1y87kb08syq45amm8cxxp2sjfi24isl4f0cl8ik0qisbm9ycw09k",
|
|
"depends": ["dplyr", "forcats", "ggplot2", "gridExtra", "magrittr", "readr", "stringr", "tibble", "tidyselect"]
|
|
},
|
|
"OmnipathR": {
|
|
"name": "OmnipathR",
|
|
"version": "3.12.2",
|
|
"sha256": "0ya013p8lsmmkv21r68c0bh72qrq3a6rxsmqvcbzhr558sqgv9mb",
|
|
"depends": ["checkmate", "crayon", "curl", "digest", "dplyr", "httr", "igraph", "jsonlite", "later", "logger", "lubridate", "magrittr", "progress", "purrr", "rappdirs", "readr", "readxl", "rlang", "rmarkdown", "rvest", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "withr", "xml2", "yaml"]
|
|
},
|
|
"OncoScore": {
|
|
"name": "OncoScore",
|
|
"version": "1.32.0",
|
|
"sha256": "1n7rlng6jqrxsas2zs94jfmgwgs6yaxavn14q112qinlmjxcdfxp",
|
|
"depends": ["biomaRt"]
|
|
},
|
|
"OncoSimulR": {
|
|
"name": "OncoSimulR",
|
|
"version": "4.6.0",
|
|
"sha256": "1j7d7ajlalhiwn12kpbagx8f0gnfsals4p5bkiik7a5ybwann33r",
|
|
"depends": ["RColorBrewer", "Rcpp", "Rgraphviz", "car", "data_table", "dplyr", "ggplot2", "ggrepel", "graph", "gtools", "igraph", "smatr", "stringr"]
|
|
},
|
|
"OpenStats": {
|
|
"name": "OpenStats",
|
|
"version": "1.16.0",
|
|
"sha256": "1hxazy0rf0rvvr1ivw33fi72099x3blzzzwymckxhqskmsj52120",
|
|
"depends": ["AICcmodavg", "Hmisc", "MASS", "car", "jsonlite", "knitr", "nlme", "rlist", "summarytools"]
|
|
},
|
|
"OrderedList": {
|
|
"name": "OrderedList",
|
|
"version": "1.76.0",
|
|
"sha256": "0g604sdjwz3p5r95slp98a87sb3clinpwj76xbrdmahbjcz1gm6s",
|
|
"depends": ["Biobase", "twilight"]
|
|
},
|
|
"Organism_dplyr": {
|
|
"name": "Organism.dplyr",
|
|
"version": "1.32.0",
|
|
"sha256": "03z5pyqbaxwyrq5m858c8k69fwvclq98ksr84dc4m7r8lzz2hfxx",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BiocFileCache", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "dbplyr", "dplyr", "rlang", "tibble"]
|
|
},
|
|
"OrganismDbi": {
|
|
"name": "OrganismDbi",
|
|
"version": "1.46.0",
|
|
"sha256": "1cfh632rpmklmyd5cibwiy0i2pk2kk2m39g8mq5sxfwd2am4r0jk",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocManager", "DBI", "GenomicFeatures", "GenomicRanges", "IRanges", "RBGL", "S4Vectors", "graph", "txdbmaker"]
|
|
},
|
|
"Oscope": {
|
|
"name": "Oscope",
|
|
"version": "1.34.0",
|
|
"sha256": "16d2ngakdg73rdx0bf1pz3z1n8npjzl3b7dn94g9zbayw4vp3x5z",
|
|
"depends": ["BiocParallel", "EBSeq", "cluster", "testthat"]
|
|
},
|
|
"OutSplice": {
|
|
"name": "OutSplice",
|
|
"version": "1.4.0",
|
|
"sha256": "1kln52s2a0icvsna2ip08gsmggbbp8arj4mnpaj068ff6maa4hy6",
|
|
"depends": ["AnnotationDbi", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "org_Hs_eg_db"]
|
|
},
|
|
"PAA": {
|
|
"name": "PAA",
|
|
"version": "1.38.0",
|
|
"sha256": "1afkvcb4d5iqzmn1nk51kn9xmwpbps00ymarsj3bc7zlf9aani4c",
|
|
"depends": ["MASS", "ROCR", "Rcpp", "e1071", "gplots", "gtools", "limma", "mRMRe", "randomForest", "sva"]
|
|
},
|
|
"PADOG": {
|
|
"name": "PADOG",
|
|
"version": "1.46.0",
|
|
"sha256": "0rm8zyvgipb22z47nxyalfpdww8c7360zbmx4n7g3lnd2v8csgks",
|
|
"depends": ["AnnotationDbi", "Biobase", "GSA", "KEGGREST", "KEGGdzPathwaysGEO", "doRNG", "foreach", "hgu133a_db", "hgu133plus2_db", "limma", "nlme"]
|
|
},
|
|
"PAIRADISE": {
|
|
"name": "PAIRADISE",
|
|
"version": "1.20.0",
|
|
"sha256": "1dj5rx6jhcr3k9szhvaqc1savfbpqbm9q4i6n18mj23wzvvqhrp4",
|
|
"depends": ["BiocParallel", "S4Vectors", "SummarizedExperiment", "abind", "nloptr"]
|
|
},
|
|
"PANR": {
|
|
"name": "PANR",
|
|
"version": "1.50.0",
|
|
"sha256": "14s6ldpxvzkxh356s5i40sx4x286g81qjyfsd2ax4y32kk7qdb7r",
|
|
"depends": ["MASS", "RedeR", "igraph", "pvclust"]
|
|
},
|
|
"PAST": {
|
|
"name": "PAST",
|
|
"version": "1.20.0",
|
|
"sha256": "01d7lw7x0wfszpi9lnq9alpba3d54z6lcai4fpdn4y53diamaygy",
|
|
"depends": ["GenomicRanges", "S4Vectors", "doParallel", "dplyr", "foreach", "ggplot2", "iterators", "qvalue", "rlang", "rtracklayer"]
|
|
},
|
|
"PCAN": {
|
|
"name": "PCAN",
|
|
"version": "1.32.0",
|
|
"sha256": "1iawwvvm55fkipmkfwq64s5lbzxk2l229x3idzb1gvvjrkqk9lb7",
|
|
"depends": ["BiocParallel"]
|
|
},
|
|
"PCAtools": {
|
|
"name": "PCAtools",
|
|
"version": "2.16.0",
|
|
"sha256": "04a1fvwgqxzf7992lyh9qzz2z2fgmfwfjvpw5xr21pcrpas57l2r",
|
|
"depends": ["BH", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "Matrix", "Rcpp", "beachmat", "cowplot", "dqrng", "ggplot2", "ggrepel", "lattice", "reshape2"]
|
|
},
|
|
"PDATK": {
|
|
"name": "PDATK",
|
|
"version": "1.12.0",
|
|
"sha256": "079gdwh9m90r5b0p0szqv222sgdmjr6s3sz19l5xz0435r7h53nv",
|
|
"depends": ["BiocGenerics", "BiocParallel", "ConsensusClusterPlus", "CoreGx", "MatrixGenerics", "MultiAssayExperiment", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "caret", "clusterRepro", "data_table", "dplyr", "genefu", "ggplot2", "ggplotify", "igraph", "matrixStats", "pROC", "piano", "plyr", "reportROC", "rlang", "scales", "survcomp", "survival", "survminer", "switchBox", "verification"]
|
|
},
|
|
"PECA": {
|
|
"name": "PECA",
|
|
"version": "1.40.0",
|
|
"sha256": "0vx17yhls9ccmp0mns7w89dq49d3alqnzxvq3kvhjrdxnhgdn5d1",
|
|
"depends": ["ROTS", "affy", "aroma_affymetrix", "aroma_core", "genefilter", "limma", "preprocessCore"]
|
|
},
|
|
"PICS": {
|
|
"name": "PICS",
|
|
"version": "2.48.0",
|
|
"sha256": "16vf27fjrvmhfjndn3d706w6a3fd10nsmg6zmj1cch13c863xr13",
|
|
"depends": ["GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools"]
|
|
},
|
|
"PING": {
|
|
"name": "PING",
|
|
"version": "2.48.0",
|
|
"sha256": "1r09afnm6m9s9z7f0g6wsm677pc681j985psddzgqfmcdwbz75i3",
|
|
"depends": ["BSgenome", "BiocGenerics", "GenomicRanges", "Gviz", "IRanges", "PICS", "S4Vectors", "fda"]
|
|
},
|
|
"PIPETS": {
|
|
"name": "PIPETS",
|
|
"version": "1.0.3",
|
|
"sha256": "0argzw874689hn4dddips86rpvn4i176gxj18j3f2jx5z4j61y4a",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "dplyr"]
|
|
},
|
|
"PIUMA": {
|
|
"name": "PIUMA",
|
|
"version": "1.0.0",
|
|
"sha256": "10b8d8525pz7bl8kg5ga0ca2ngns7g9ik2grhvx920mza7pail46",
|
|
"depends": ["Hmisc", "SummarizedExperiment", "cluster", "dbscan", "ggplot2", "igraph", "kernlab", "patchwork", "scales", "tsne", "umap", "vegan"]
|
|
},
|
|
"PLPE": {
|
|
"name": "PLPE",
|
|
"version": "1.64.0",
|
|
"sha256": "06g8qrxmd29f8skzll3k5lz68j97466n1wpv7qd2ibpl4hi6zyg0",
|
|
"depends": ["Biobase", "LPE", "MASS"]
|
|
},
|
|
"PLSDAbatch": {
|
|
"name": "PLSDAbatch",
|
|
"version": "1.0.0",
|
|
"sha256": "15zaxr8qv5rp04r8430bl8llkdx4vhwkjn8bl8a8sv6q39vvqvys",
|
|
"depends": ["Biobase", "BiocStyle", "Rdpack", "TreeSummarizedExperiment", "ggplot2", "ggpubr", "gridExtra", "lmerTest", "mixOmics", "performance", "pheatmap", "scales", "vegan"]
|
|
},
|
|
"POMA": {
|
|
"name": "POMA",
|
|
"version": "1.14.0",
|
|
"sha256": "1g9xsmg3zv5h7l2wxk4zm4fsihzah8phg33p2hhqbinzkzk6pbkw",
|
|
"depends": ["ComplexHeatmap", "DESeq2", "FSA", "MASS", "RankProd", "SummarizedExperiment", "broom", "caret", "dbscan", "dplyr", "ggplot2", "ggrepel", "glmnet", "impute", "janitor", "limma", "lme4", "magrittr", "mixOmics", "randomForest", "rlang", "sva", "tibble", "tidyr", "uwot", "vegan"]
|
|
},
|
|
"POWSC": {
|
|
"name": "POWSC",
|
|
"version": "1.12.0",
|
|
"sha256": "01jh4lhipkj5iga3vp0m42klpi8160mbzsqb5b029h7sil8n3w94",
|
|
"depends": ["Biobase", "MAST", "RColorBrewer", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "limma", "pheatmap"]
|
|
},
|
|
"PPInfer": {
|
|
"name": "PPInfer",
|
|
"version": "1.30.0",
|
|
"sha256": "1b5x9z2w9vpnkbmgh05lxpg1pkjhxnsxaz86ma018czicarxqcx3",
|
|
"depends": ["STRINGdb", "biomaRt", "fgsea", "ggplot2", "httr", "igraph", "kernlab", "yeastExpData"]
|
|
},
|
|
"PREDA": {
|
|
"name": "PREDA",
|
|
"version": "1.50.0",
|
|
"sha256": "17xcaw5spcl41dgilpx6cq9df1zzzrk4x6xaxpa5pmmfn7gfk4zv",
|
|
"depends": ["Biobase", "annotate", "lokern", "multtest"]
|
|
},
|
|
"PROMISE": {
|
|
"name": "PROMISE",
|
|
"version": "1.56.0",
|
|
"sha256": "1r9pcilq5vdq958gwcp29q2mc7w55l3xpn76acnnrh3xkg9gm8rf",
|
|
"depends": ["Biobase", "GSEABase"]
|
|
},
|
|
"PROPER": {
|
|
"name": "PROPER",
|
|
"version": "1.36.0",
|
|
"sha256": "1haqz50cdd3inmjw4ifj171rx1097bxw8mkgvx07kc7vx9ypn11s",
|
|
"depends": ["edgeR"]
|
|
},
|
|
"PROPS": {
|
|
"name": "PROPS",
|
|
"version": "1.26.0",
|
|
"sha256": "10xzvw2m9i7h7y227xqkzc41d6ajpzqwciwn6dkg5mgagss42367",
|
|
"depends": ["Biobase", "bnlearn", "reshape2", "sva"]
|
|
},
|
|
"PROcess": {
|
|
"name": "PROcess",
|
|
"version": "1.80.0",
|
|
"sha256": "0ra9rjc6525df0hn7c09fzi6qnmnwcrycng49yy151l72yy8kiki",
|
|
"depends": ["Icens"]
|
|
},
|
|
"PSMatch": {
|
|
"name": "PSMatch",
|
|
"version": "1.8.0",
|
|
"sha256": "13w145is3d95392qqdq6qh3mrlcixbj0jzz4r590xas1qjp5d03h",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Matrix", "MsCoreUtils", "ProtGenerics", "QFeatures", "S4Vectors", "igraph"]
|
|
},
|
|
"PWMEnrich": {
|
|
"name": "PWMEnrich",
|
|
"version": "4.40.0",
|
|
"sha256": "0fzmsm880w1vwbjcakc5mkljx41rpk8m71g49kwmjgb1z36173m2",
|
|
"depends": ["BiocGenerics", "Biostrings", "S4Vectors", "evd", "gdata", "seqLogo"]
|
|
},
|
|
"PanViz": {
|
|
"name": "PanViz",
|
|
"version": "1.6.0",
|
|
"sha256": "1h4fxqxkaph5j3vkfhmmkhvmqa8czzdzxcg6f06v94hqf38i86i5",
|
|
"depends": ["RColorBrewer", "colorspace", "data_table", "dplyr", "easycsv", "futile_logger", "igraph", "magrittr", "rentrez", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"PanomiR": {
|
|
"name": "PanomiR",
|
|
"version": "1.8.0",
|
|
"sha256": "0hzhhrknspdw81dn48xqx532n27lj88k57ydsfxfm6rkix87pv96",
|
|
"depends": ["GSEABase", "RColorBrewer", "clusterProfiler", "dplyr", "forcats", "igraph", "limma", "metap", "org_Hs_eg_db", "preprocessCore", "rlang", "tibble", "withr"]
|
|
},
|
|
"Path2PPI": {
|
|
"name": "Path2PPI",
|
|
"version": "1.34.0",
|
|
"sha256": "0ys63k4637pr9qv037vmvv39qwxpi94rpaqffj64r0z32hi34445",
|
|
"depends": ["igraph"]
|
|
},
|
|
"PathNet": {
|
|
"name": "PathNet",
|
|
"version": "1.44.0",
|
|
"sha256": "1ad0x8amp5kh4hync86w3kikhqx2j97hsgpb2qy81dn83kbfbdwd",
|
|
"depends": []
|
|
},
|
|
"PathoStat": {
|
|
"name": "PathoStat",
|
|
"version": "1.30.0",
|
|
"sha256": "1y3gzv4nq9jykdl07mabw51m60g267hb5sjjn3p9g7r6ysasj8c2",
|
|
"depends": ["BiocStyle", "ComplexHeatmap", "DESeq2", "DT", "RColorBrewer", "ROCR", "XML", "ape", "corpcor", "devtools", "dplyr", "edgeR", "ggplot2", "glmnet", "gmodels", "knitr", "limma", "matrixStats", "phyloseq", "plotly", "plyr", "rentrez", "reshape2", "scales", "shiny", "shinyjs", "tidyr", "vegan", "webshot"]
|
|
},
|
|
"PeacoQC": {
|
|
"name": "PeacoQC",
|
|
"version": "1.14.0",
|
|
"sha256": "1r354h8lmp0r2nlvr9xj45dm8gbqrsfhl2p3wc9gvldsllq7z3ix",
|
|
"depends": ["ComplexHeatmap", "circlize", "flowCore", "flowWorkspace", "ggplot2", "gridExtra", "plyr"]
|
|
},
|
|
"Pedixplorer": {
|
|
"name": "Pedixplorer",
|
|
"version": "1.0.0",
|
|
"sha256": "0nkvypb1gh0b43p864c9rnfbvsdc9jb2jr3c0jrg33crxjf6rmr0",
|
|
"depends": ["Matrix", "S4Vectors", "dplyr", "ggplot2", "plyr", "quadprog", "stringr", "testthat", "tidyr"]
|
|
},
|
|
"PepsNMR": {
|
|
"name": "PepsNMR",
|
|
"version": "1.22.0",
|
|
"sha256": "0z3kw8j972zmrcyikag5js20zpgc3l5bgkn5q31dzi1q7ynpkwhv",
|
|
"depends": ["Matrix", "ggplot2", "gridExtra", "matrixStats", "ptw", "reshape2"]
|
|
},
|
|
"PhIPData": {
|
|
"name": "PhIPData",
|
|
"version": "1.12.0",
|
|
"sha256": "1ar7fdsxngdyikcvi7j230jqfhdvji4cvfrxkn606wy764mrpyrm",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "cli", "edgeR"]
|
|
},
|
|
"PharmacoGx": {
|
|
"name": "PharmacoGx",
|
|
"version": "3.8.0",
|
|
"sha256": "098zg2c8xiw6v8fc072cnwlls5q762yjykaf6cjhyrz00bqxmvh1",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "CoreGx", "MultiAssayExperiment", "RColorBrewer", "Rcpp", "S4Vectors", "SummarizedExperiment", "boot", "caTools", "checkmate", "coop", "data_table", "downloader", "ggplot2", "jsonlite", "magicaxis", "reshape2"]
|
|
},
|
|
"PhenStat": {
|
|
"name": "PhenStat",
|
|
"version": "2.40.0",
|
|
"sha256": "0dpnij94h808aab8pyvvk7lnfn00f1hkisaasv28blj14fml63s8",
|
|
"depends": ["MASS", "SmoothWin", "car", "corrplot", "ggplot2", "graph", "knitr", "lme4", "logistf", "msgps", "nlme", "nortest", "pingr", "reshape"]
|
|
},
|
|
"PhenoGeneRanker": {
|
|
"name": "PhenoGeneRanker",
|
|
"version": "1.12.0",
|
|
"sha256": "1l85ibg1nm4dvwjc7b1gqmq6z5yrg3phfr24i23fzlddbwyx75hh",
|
|
"depends": ["Matrix", "doParallel", "dplyr", "foreach", "igraph"]
|
|
},
|
|
"PhosR": {
|
|
"name": "PhosR",
|
|
"version": "1.14.0",
|
|
"sha256": "05lc2l65nl15250f39rw7pcsfxw74rcakb6gg5wcp515iv13li07",
|
|
"depends": ["BiocGenerics", "GGally", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "circlize", "dendextend", "dplyr", "e1071", "ggdendro", "ggplot2", "ggpubr", "ggtext", "igraph", "limma", "network", "pcaMethods", "pheatmap", "preprocessCore", "reshape2", "rlang", "ruv", "stringi", "tidyr"]
|
|
},
|
|
"PhyloProfile": {
|
|
"name": "PhyloProfile",
|
|
"version": "1.18.0",
|
|
"sha256": "04z6k0i28d48v1d7n7zgxkb9n1747k27h5b5zlj8id8w293ggcaa",
|
|
"depends": ["BiocStyle", "Biostrings", "DT", "ExperimentHub", "OmaDB", "RColorBrewer", "RCurl", "ape", "bioDist", "colourpicker", "data_table", "energy", "ggplot2", "gridExtra", "pbapply", "plyr", "shiny", "shinyBS", "shinyFiles", "shinycssloaders", "shinyjs", "stringr", "xml2", "yaml", "zoo"]
|
|
},
|
|
"Pigengene": {
|
|
"name": "Pigengene",
|
|
"version": "1.30.0",
|
|
"sha256": "08jgn7cx3gvxsih8jp9xh1irf7f0j0yfw4srbc6ynffc0197papc",
|
|
"depends": ["BiocStyle", "C50", "DBI", "DOSE", "GO_db", "MASS", "ReactomePA", "Rgraphviz", "WGCNA", "bnlearn", "clusterProfiler", "dplyr", "gdata", "ggplot2", "graph", "impute", "matrixStats", "openxlsx", "partykit", "pheatmap", "preprocessCore"]
|
|
},
|
|
"PoDCall": {
|
|
"name": "PoDCall",
|
|
"version": "1.12.0",
|
|
"sha256": "121clnkr598p7iy91s0dp76ammz853p2cds0zy15pjj8n21rc7lv",
|
|
"depends": ["DT", "LaplacesDemon", "diptest", "ggplot2", "gridExtra", "mclust", "purrr", "readr", "rlist", "shiny", "shinyjs"]
|
|
},
|
|
"PrInCE": {
|
|
"name": "PrInCE",
|
|
"version": "1.20.0",
|
|
"sha256": "173vakwqjalh2spz1f7qq6ngw8hjkqpj4zf0rx6xsnycjn54jip0",
|
|
"depends": ["Biobase", "Hmisc", "LiblineaR", "MSnbase", "Rdpack", "dplyr", "forecast", "magrittr", "naivebayes", "progress", "purrr", "ranger", "robustbase", "speedglm", "tester", "tidyr"]
|
|
},
|
|
"Prostar": {
|
|
"name": "Prostar",
|
|
"version": "1.36.2",
|
|
"sha256": "140whr7klab1as5y8h9lbmlgn4f63kfdfhzjyxjp8pk3aq1xv53i",
|
|
"depends": ["Biobase", "DAPAR", "DAPARdata", "DT", "RColorBrewer", "R_utils", "XML", "colourpicker", "data_table", "future", "ggplot2", "gplots", "gtools", "highcharter", "htmlwidgets", "later", "markdown", "promises", "rclipboard", "rhandsontable", "sass", "shiny", "shinyAce", "shinyBS", "shinyTree", "shinyWidgets", "shinycssloaders", "shinyjqui", "shinyjs", "shinythemes", "tibble", "vioplot", "webshot"]
|
|
},
|
|
"ProtGenerics": {
|
|
"name": "ProtGenerics",
|
|
"version": "1.36.0",
|
|
"sha256": "0h0i4dgsgvyhma5pfvycv6wyxv27vp0b2i8b6l8hj55z8cvmvfln",
|
|
"depends": []
|
|
},
|
|
"ProteoDisco": {
|
|
"name": "ProteoDisco",
|
|
"version": "1.10.0",
|
|
"sha256": "10cdniinadihp4acdz22c0zjg3if3rqn9cy753f2x1nq539n3vql",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "ParallelLogger", "S4Vectors", "VariantAnnotation", "XVector", "checkmate", "cleaver", "dplyr", "plyr", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"ProteoMM": {
|
|
"name": "ProteoMM",
|
|
"version": "1.22.0",
|
|
"sha256": "173nqg0nqdgy7z9qklxk88lxmhj7qf8jjcidpllf9hap9y1lk910",
|
|
"depends": ["biomaRt", "gdata", "ggplot2", "ggrepel", "gtools", "matrixStats"]
|
|
},
|
|
"PureCN": {
|
|
"name": "PureCN",
|
|
"version": "2.10.0",
|
|
"sha256": "1vywvl90nvqlzbamn6g6iparn3b09zkz95sw13rgp8qlqc192nbf",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "DNAcopy", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VGAM", "VariantAnnotation", "data_table", "futile_logger", "ggplot2", "gridExtra", "mclust", "rhdf5", "rtracklayer"]
|
|
},
|
|
"Pviz": {
|
|
"name": "Pviz",
|
|
"version": "1.38.0",
|
|
"sha256": "1hshfgnidshwfka8l0fs4x4znpmmdi42wnkrrl6rhchj9dymjcnr",
|
|
"depends": ["Biostrings", "GenomicRanges", "Gviz", "IRanges", "biovizBase", "data_table"]
|
|
},
|
|
"QDNAseq": {
|
|
"name": "QDNAseq",
|
|
"version": "1.40.0",
|
|
"sha256": "1myk6qgl45ya7qw6sx6xc98d8m5ffl2ghm3zvqmyh9r0sp6x184f",
|
|
"depends": ["Biobase", "CGHbase", "CGHcall", "DNAcopy", "GenomicRanges", "IRanges", "R_utils", "Rsamtools", "future_apply", "matrixStats"]
|
|
},
|
|
"QFeatures": {
|
|
"name": "QFeatures",
|
|
"version": "1.14.2",
|
|
"sha256": "1vd1kvx2kr47czz58375msc2x8p155cn0zqr4w7i1v1ki951r3a4",
|
|
"depends": ["AnnotationFilter", "Biobase", "BiocGenerics", "IRanges", "MsCoreUtils", "MultiAssayExperiment", "ProtGenerics", "S4Vectors", "SummarizedExperiment", "igraph", "lazyeval", "plotly", "reshape2", "tidyr", "tidyselect"]
|
|
},
|
|
"QSutils": {
|
|
"name": "QSutils",
|
|
"version": "1.22.0",
|
|
"sha256": "10z7cmhaqn4cp2lw3xq1mhjcjbph2lsprdz8k9q3qkmxgzl3anik",
|
|
"depends": ["BiocGenerics", "Biostrings", "ape", "psych", "pwalign"]
|
|
},
|
|
"QTLExperiment": {
|
|
"name": "QTLExperiment",
|
|
"version": "1.2.0",
|
|
"sha256": "1kns5kgfazfyg3bf19hvkqngq4n6xzqww5aya2h8bakl53bzk2sc",
|
|
"depends": ["BiocGenerics", "S4Vectors", "SummarizedExperiment", "ashr", "checkmate", "collapse", "dplyr", "rlang", "tibble", "tidyr", "vroom"]
|
|
},
|
|
"QUBIC": {
|
|
"name": "QUBIC",
|
|
"version": "1.32.0",
|
|
"sha256": "1dqg7vdpmsjd5prswz7g223q0wzwih44k8fz2cy5a83cdc1c7xl2",
|
|
"depends": ["Matrix", "Rcpp", "RcppArmadillo", "biclust"]
|
|
},
|
|
"Qtlizer": {
|
|
"name": "Qtlizer",
|
|
"version": "1.18.0",
|
|
"sha256": "0m307wfjqg7rrgsxvphggy1vd3l9l58vknjqnc63j02qr0wsw43m",
|
|
"depends": ["GenomicRanges", "curl", "httr", "stringi"]
|
|
},
|
|
"QuartPAC": {
|
|
"name": "QuartPAC",
|
|
"version": "1.36.0",
|
|
"sha256": "0ha8gv7a6ia4z2z2r7404hngc1sy269hrpj9gdxwhj7hl15nqs30",
|
|
"depends": ["Biostrings", "GraphPAC", "SpacePAC", "data_table", "iPAC", "pwalign"]
|
|
},
|
|
"QuasR": {
|
|
"name": "QuasR",
|
|
"version": "1.44.0",
|
|
"sha256": "116qnp7d7z4a56fv6n55yzrdlmma9gwrw234nmy8iapkn5ms3xky",
|
|
"depends": ["AnnotationDbi", "BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicFiles", "GenomicRanges", "IRanges", "Rbowtie", "Rhtslib", "Rsamtools", "S4Vectors", "ShortRead", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"QuaternaryProd": {
|
|
"name": "QuaternaryProd",
|
|
"version": "1.38.0",
|
|
"sha256": "0bpx4lliz75jh6d2ngrmjc21577aawrcs7lh1k5pwg94jmj03pmg",
|
|
"depends": ["Rcpp", "dplyr", "yaml"]
|
|
},
|
|
"R3CPET": {
|
|
"name": "R3CPET",
|
|
"version": "1.36.0",
|
|
"sha256": "12gq5mj6vbkd49slhpgnmwfdl65hr4wip9xbqx3j72b0f0yabg1h",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "Hmisc", "IRanges", "RCurl", "Rcpp", "S4Vectors", "clValid", "data_table", "ggbio", "ggplot2", "igraph", "pheatmap", "reshape2"]
|
|
},
|
|
"R453Plus1Toolbox": {
|
|
"name": "R453Plus1Toolbox",
|
|
"version": "1.54.0",
|
|
"sha256": "0x5p028x13hygd1b2l4g2dclm9lnwj1hsh6x58hmkpbx27w68rb9",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "Biostrings", "GenomicRanges", "IRanges", "R2HTML", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "TeachingDemos", "VariantAnnotation", "XVector", "biomaRt", "pwalign", "xtable"]
|
|
},
|
|
"R4RNA": {
|
|
"name": "R4RNA",
|
|
"version": "1.32.0",
|
|
"sha256": "0cpfngd11zlws756q8cnhy5451kj8hg5ckilvmhndfapkz4w93x1",
|
|
"depends": ["Biostrings"]
|
|
},
|
|
"RAIDS": {
|
|
"name": "RAIDS",
|
|
"version": "1.2.0",
|
|
"sha256": "0frwaqmbd74gccqj8ibkgkyj1ii7q8qczzmkv9wgi4m0d9m2cy0v",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BSgenome", "GENESIS", "GenomicRanges", "IRanges", "MatrixGenerics", "S4Vectors", "SNPRelate", "VariantAnnotation", "class", "ensembldb", "gdsfmt", "pROC", "rlang"]
|
|
},
|
|
"RAREsim": {
|
|
"name": "RAREsim",
|
|
"version": "1.8.0",
|
|
"sha256": "1d55wfs6rg3mq7x1f2aalgln6vpcb2qfp8fq3yi1ki4ki5dzpb05",
|
|
"depends": ["nloptr"]
|
|
},
|
|
"RBGL": {
|
|
"name": "RBGL",
|
|
"version": "1.80.0",
|
|
"sha256": "1n6rfrcvlgi6mzz36v9sniqr05xfjzvfdpv4xwsn1xq41326wdv3",
|
|
"depends": ["BH", "graph"]
|
|
},
|
|
"RBM": {
|
|
"name": "RBM",
|
|
"version": "1.36.0",
|
|
"sha256": "10q0b86jjpf5ch3xpax6vwkl8cd72djzvij0b6p53as7n8nqxz0p",
|
|
"depends": ["limma", "marray"]
|
|
},
|
|
"RBioFormats": {
|
|
"name": "RBioFormats",
|
|
"version": "1.4.0",
|
|
"sha256": "1xwazjipv1yrxyx9mny7j7mmc7mvdlrmvjwy8v3i2hfmf137nlj1",
|
|
"depends": ["EBImage", "S4Vectors", "rJava"]
|
|
},
|
|
"RBioinf": {
|
|
"name": "RBioinf",
|
|
"version": "1.64.0",
|
|
"sha256": "093gd1z1yqyhdqs8s7yyjb2ndf9izp0pnpbglp05599cf053zfnr",
|
|
"depends": ["graph"]
|
|
},
|
|
"RCAS": {
|
|
"name": "RCAS",
|
|
"version": "1.30.0",
|
|
"sha256": "0ll0sj2zyazw0nxbpybq9frmxvmcjkgk3hwp3flnysjxg056dhxg",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BiocGenerics", "Biostrings", "DT", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "cowplot", "data_table", "genomation", "ggplot2", "gprofiler2", "knitr", "pbapply", "pheatmap", "plotly", "plotrix", "proxy", "ranger", "rmarkdown", "rtracklayer", "seqLogo", "txdbmaker"]
|
|
},
|
|
"RCASPAR": {
|
|
"name": "RCASPAR",
|
|
"version": "1.50.0",
|
|
"sha256": "1aw2sqq8hmll31aagd6nxndwszxj16plba0v85jk880ycxpnd0hr",
|
|
"depends": []
|
|
},
|
|
"RCM": {
|
|
"name": "RCM",
|
|
"version": "1.20.0",
|
|
"sha256": "03f8gifzqhc5hdppk4lfybj7p3gkqb5jnpsxpf515dd7c5y210gy",
|
|
"depends": ["DBI", "MASS", "RColorBrewer", "VGAM", "alabama", "edgeR", "ggplot2", "nleqslv", "phyloseq", "reshape2", "tensor", "tseries"]
|
|
},
|
|
"RCSL": {
|
|
"name": "RCSL",
|
|
"version": "1.12.0",
|
|
"sha256": "1r103i9v8b5w74b3ad7fr25sgsd0xx5kjrxawbwks57dk9k8m272",
|
|
"depends": ["MatrixGenerics", "NbClust", "Rcpp", "RcppAnnoy", "Rtsne", "SingleCellExperiment", "ggplot2", "igraph", "pracma", "umap"]
|
|
},
|
|
"RCX": {
|
|
"name": "RCX",
|
|
"version": "1.8.0",
|
|
"sha256": "0vkh57hcz71h8v8ad1rffjakf4ax1pyh5vvfwfmfnkh19ywfln4i",
|
|
"depends": ["igraph", "jsonlite", "plyr"]
|
|
},
|
|
"RCy3": {
|
|
"name": "RCy3",
|
|
"version": "2.24.0",
|
|
"sha256": "03zmskcb8n87x6m5jlhsh2b0b2qjk91y16fdcj3kz5c1j7zfs18i",
|
|
"depends": ["BiocGenerics", "IRdisplay", "IRkernel", "RColorBrewer", "RCurl", "RJSONIO", "XML", "base64enc", "base64url", "fs", "glue", "gplots", "graph", "httr", "stringi", "uuid"]
|
|
},
|
|
"RCyjs": {
|
|
"name": "RCyjs",
|
|
"version": "2.26.1",
|
|
"sha256": "0apqkpcrl7snsaldzranz1sk6zl6vc0rgrdg5h0srkzwdqnx10sh",
|
|
"depends": ["BiocGenerics", "BrowserViz", "base64enc", "graph", "httpuv"]
|
|
},
|
|
"RDRToolbox": {
|
|
"name": "RDRToolbox",
|
|
"version": "1.54.0",
|
|
"sha256": "1lg7z6wy4903fyg1j7x5bjd9l550g05rhx0gc60ki9pwlm7q82hv",
|
|
"depends": ["MASS", "rgl"]
|
|
},
|
|
"REBET": {
|
|
"name": "REBET",
|
|
"version": "1.22.0",
|
|
"sha256": "09wb77d7j1f59mlnqdl9q4nl1qn75a9qq3sfa9k6nvb7x721scl4",
|
|
"depends": ["ASSET"]
|
|
},
|
|
"REDseq": {
|
|
"name": "REDseq",
|
|
"version": "1.50.0",
|
|
"sha256": "15lx6sjw8rm0lrvyjfq3n4nq0r6rlgwvnm6bafd86a1dii934gf8",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BSgenome_Celegans_UCSC_ce2", "BiocGenerics", "Biostrings", "ChIPpeakAnno", "IRanges", "multtest"]
|
|
},
|
|
"REMP": {
|
|
"name": "REMP",
|
|
"version": "1.28.0",
|
|
"sha256": "1ss4170nxif8942095nk5lv1knqf082i4nlxsr3kyvf8ghqn2gmd",
|
|
"depends": ["AnnotationHub", "BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "caret", "doParallel", "foreach", "impute", "iterators", "kernlab", "minfi", "org_Hs_eg_db", "ranger", "readr", "rtracklayer", "settings"]
|
|
},
|
|
"RESOLVE": {
|
|
"name": "RESOLVE",
|
|
"version": "1.6.0",
|
|
"sha256": "12ax0f3vasppwn5z10fr2mhhaaiyiii5qi3ll4yzsn7qmy02ya52",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_1000genomes_hs37d5", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "MutationalPatterns", "S4Vectors", "data_table", "ggplot2", "glmnet", "gridExtra", "lsa", "nnls", "reshape2"]
|
|
},
|
|
"RGMQL": {
|
|
"name": "RGMQL",
|
|
"version": "1.24.0",
|
|
"sha256": "1p7s17i18ql3b8yvg6pmcz62ql18ncd3hqk0rganmahfbd91idby",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "RGMQLlib", "S4Vectors", "data_table", "dplyr", "glue", "httr", "plyr", "rJava", "rtracklayer", "xml2"]
|
|
},
|
|
"RGSEA": {
|
|
"name": "RGSEA",
|
|
"version": "1.38.0",
|
|
"sha256": "1jz3m6yvk1mybac5xyhpk9vvssnm9iq1mfk2aj32hv338q7cj8js",
|
|
"depends": ["BiocGenerics"]
|
|
},
|
|
"RGraph2js": {
|
|
"name": "RGraph2js",
|
|
"version": "1.32.0",
|
|
"sha256": "1lb8kbqcimpivpzrxbcnlw8pdjzfq45nhhy7pdq7nvx9r5yrcks2",
|
|
"depends": ["digest", "graph", "rjson", "whisker"]
|
|
},
|
|
"RITAN": {
|
|
"name": "RITAN",
|
|
"version": "1.28.0",
|
|
"sha256": "1jvwvgdqgxlnccf8k2mc1ihg4nasdqbl0pnm7khw3px39b1bnlzl",
|
|
"depends": ["AnnotationFilter", "BgeeDB", "EnsDb_Hsapiens_v86", "GenomicFeatures", "MCL", "RColorBrewer", "RITANdata", "STRINGdb", "dynamicTreeCut", "ensembldb", "ggplot2", "gplots", "gridExtra", "gsubfn", "hash", "igraph", "knitr", "linkcomm", "plotrix", "png", "reshape2", "sqldf"]
|
|
},
|
|
"RIVER": {
|
|
"name": "RIVER",
|
|
"version": "1.28.0",
|
|
"sha256": "0clqr2h7cf00lzj1y405hfyc9i1aadssrzhrzl4wp1r4774rpw4z",
|
|
"depends": ["Biobase", "ggplot2", "glmnet", "pROC"]
|
|
},
|
|
"RImmPort": {
|
|
"name": "RImmPort",
|
|
"version": "1.32.0",
|
|
"sha256": "0kvl9ivf0y7wjkaj7a5qbn9hv9ghbl00xm55i30p4vsvk8q32h3s",
|
|
"depends": ["DBI", "RSQLite", "data_table", "dplyr", "plyr", "reshape2", "sqldf"]
|
|
},
|
|
"RJMCMCNucleosomes": {
|
|
"name": "RJMCMCNucleosomes",
|
|
"version": "1.28.0",
|
|
"sha256": "0w9d61zd6g3c8dp9i68nw8rmbnrf6lfa86m9a7ydkf54w7p33fsk",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rcpp", "S4Vectors", "consensusSeekeR"]
|
|
},
|
|
"RLMM": {
|
|
"name": "RLMM",
|
|
"version": "1.66.0",
|
|
"sha256": "1ihqlag1gxw08rg1ii2mpxg8gnwsxyg3ggd3k8fjnlqd6zsbvdq9",
|
|
"depends": ["MASS"]
|
|
},
|
|
"RLassoCox": {
|
|
"name": "RLassoCox",
|
|
"version": "1.12.0",
|
|
"sha256": "14zw0xnssh17c6v4qy3b81qrv453r2ayjnq62d1ix695xl7q2g43",
|
|
"depends": ["Matrix", "glmnet", "igraph", "survival"]
|
|
},
|
|
"RMassBank": {
|
|
"name": "RMassBank",
|
|
"version": "3.14.0",
|
|
"sha256": "05ymkjk6hkilm4wn7qn6dh1gf4pxp3zk339fbi10jri8ar0ilbls",
|
|
"depends": ["Biobase", "ChemmineOB", "ChemmineR", "MSnbase", "R_utils", "Rcpp", "S4Vectors", "XML", "assertthat", "data_table", "digest", "enviPat", "glue", "httr", "logger", "mzR", "rcdk", "readJDX", "rjson", "webchem", "yaml"]
|
|
},
|
|
"RNAAgeCalc": {
|
|
"name": "RNAAgeCalc",
|
|
"version": "1.16.0",
|
|
"sha256": "1h221flwa8b4dchw3b65cx7z11744cljzimqc2pv991dp21bvhnk",
|
|
"depends": ["AnnotationDbi", "SummarizedExperiment", "ggplot2", "impute", "org_Hs_eg_db", "recount"]
|
|
},
|
|
"RNASeqPower": {
|
|
"name": "RNASeqPower",
|
|
"version": "1.44.0",
|
|
"sha256": "0jv1cm4j467gjx6j297h60yj7xd4ax71v2rgm65sibswbnxvbfa1",
|
|
"depends": []
|
|
},
|
|
"RNAdecay": {
|
|
"name": "RNAdecay",
|
|
"version": "1.24.0",
|
|
"sha256": "1bf0mgj1n38wqapabbw9d74s5099sqlpkhb9yd9p8w48hwfdk4nc",
|
|
"depends": ["TMB", "ggplot2", "gplots", "nloptr", "scales"]
|
|
},
|
|
"RNAinteract": {
|
|
"name": "RNAinteract",
|
|
"version": "1.52.0",
|
|
"sha256": "18jxg1wxa4z8ik9g7q3rr6mijrl1vk4b7wnkxs5pll6qz97mh726",
|
|
"depends": ["Biobase", "ICS", "ICSNP", "RColorBrewer", "abind", "cellHTS2", "geneplotter", "gplots", "hwriter", "lattice", "latticeExtra", "limma", "locfit", "splots"]
|
|
},
|
|
"RNAmodR": {
|
|
"name": "RNAmodR",
|
|
"version": "1.18.0",
|
|
"sha256": "0c4ndc7r3rpk8gmd0n4n5q0x72cz3ja48sq4w3w9ahn05l9qql2v",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "Modstrings", "RColorBrewer", "ROCR", "Rsamtools", "S4Vectors", "colorRamps", "ggplot2", "matrixStats", "reshape2", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"RNAmodR_AlkAnilineSeq": {
|
|
"name": "RNAmodR.AlkAnilineSeq",
|
|
"version": "1.18.0",
|
|
"sha256": "1czaa3y8xzadrj1f8h1y4f0xvpb12s8l64k5lxhvp77s1gcxqcxm",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "Gviz", "IRanges", "RNAmodR", "S4Vectors"]
|
|
},
|
|
"RNAmodR_ML": {
|
|
"name": "RNAmodR.ML",
|
|
"version": "1.18.0",
|
|
"sha256": "1xcpjq8w81gw52fjb5ijdlf2k94qwqf6s6c8h6y6rja1csqpkn9i",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "RNAmodR", "S4Vectors", "ranger"]
|
|
},
|
|
"RNAmodR_RiboMethSeq": {
|
|
"name": "RNAmodR.RiboMethSeq",
|
|
"version": "1.18.0",
|
|
"sha256": "0qcl95c22kwn0prhznk2s97aisapq0pldcvp2mvckh5wi2jqrbbp",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "Gviz", "IRanges", "RNAmodR", "S4Vectors"]
|
|
},
|
|
"RNAsense": {
|
|
"name": "RNAsense",
|
|
"version": "1.18.0",
|
|
"sha256": "1ynaylwxb1vcwx5g14sw1lz6sidnbhc0gb4z3i8gz1yr32mpnmgl",
|
|
"depends": ["NBPSeq", "SummarizedExperiment", "ggplot2", "qvalue"]
|
|
},
|
|
"RNAseqCovarImpute": {
|
|
"name": "RNAseqCovarImpute",
|
|
"version": "1.2.0",
|
|
"sha256": "1gy7kmhp7hzv75hi1n8lcgsqqwwr7nm6r50rccqmswky5g6wd9nb",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "dplyr", "edgeR", "foreach", "limma", "magrittr", "mice", "rlang"]
|
|
},
|
|
"ROC": {
|
|
"name": "ROC",
|
|
"version": "1.80.0",
|
|
"sha256": "074c6jg0dyr3hckizpg56f8ij8szj43cx6x5bbw7a01xdjdc70yb",
|
|
"depends": ["knitr"]
|
|
},
|
|
"ROCpAI": {
|
|
"name": "ROCpAI",
|
|
"version": "1.16.0",
|
|
"sha256": "1nisrspdl4m6q9hpxhd49dxhfsi27znh4alcvc7gbhlqmbi0q9cs",
|
|
"depends": ["SummarizedExperiment", "boot", "fission", "knitr"]
|
|
},
|
|
"ROSeq": {
|
|
"name": "ROSeq",
|
|
"version": "1.16.0",
|
|
"sha256": "1rs3dfgsm7bznvjyajdkkvi3zdd84barkq78ma09vg02n7x6zkfc",
|
|
"depends": ["edgeR", "limma", "pbmcapply"]
|
|
},
|
|
"ROTS": {
|
|
"name": "ROTS",
|
|
"version": "1.32.0",
|
|
"sha256": "1s9hr64gpz08j638wlglcmk6c8yyj1hzrgddiphklkapc1asr320",
|
|
"depends": ["Biobase", "Rcpp"]
|
|
},
|
|
"ROntoTools": {
|
|
"name": "ROntoTools",
|
|
"version": "2.32.0",
|
|
"sha256": "0idclyk1dwpmfksf9l9ms4nwpin1flw50bafxa0pqlh9fdj5bz0z",
|
|
"depends": ["KEGGREST", "KEGGgraph", "Rgraphviz", "boot", "graph"]
|
|
},
|
|
"RPA": {
|
|
"name": "RPA",
|
|
"version": "1.60.0",
|
|
"sha256": "0v1jkny311ba43fz7x4i94ddm5hq9281gfj6wkr3disdbxjqgj37",
|
|
"depends": ["BiocGenerics", "BiocStyle", "affy", "phyloseq", "rmarkdown"]
|
|
},
|
|
"RProtoBufLib": {
|
|
"name": "RProtoBufLib",
|
|
"version": "2.16.0",
|
|
"sha256": "1vhp43l2iknljy240kzgvckkzbg186nkfdd1m3la9fnf9sqr33z9",
|
|
"depends": []
|
|
},
|
|
"RRHO": {
|
|
"name": "RRHO",
|
|
"version": "1.44.0",
|
|
"sha256": "132mwv1qc32gbdjm8825aqd5l1f64hx78kqcbb6a347ch9c9pmwv",
|
|
"depends": ["VennDiagram"]
|
|
},
|
|
"RSVSim": {
|
|
"name": "RSVSim",
|
|
"version": "1.44.0",
|
|
"sha256": "1w79dsv2z8i7m58pbih52sfh8adr9gl5j94j4k8vhaj4288jba0d",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "ShortRead"]
|
|
},
|
|
"RSeqAn": {
|
|
"name": "RSeqAn",
|
|
"version": "1.24.0",
|
|
"sha256": "0jc2abpjq2w7f22qj9izd98xckz7zsjx516g5ygdrik3r47hgh6x",
|
|
"depends": ["Rcpp"]
|
|
},
|
|
"RTCA": {
|
|
"name": "RTCA",
|
|
"version": "1.56.0",
|
|
"sha256": "078bh47vfkr5a0qvhnjadjzd0ph3pg32dv1r3ssvz9fq8qg4g0hy",
|
|
"depends": ["Biobase", "RColorBrewer", "gtools"]
|
|
},
|
|
"RTCGA": {
|
|
"name": "RTCGA",
|
|
"version": "1.34.0",
|
|
"sha256": "1a967id4anjzpdlbdd8a85fvb1z7mcr759pr91aashv12bzzhnk0",
|
|
"depends": ["RCurl", "XML", "assertthat", "data_table", "dplyr", "ggplot2", "ggthemes", "htmltools", "knitr", "purrr", "rmarkdown", "rvest", "scales", "stringi", "survival", "survminer", "viridis", "xml2"]
|
|
},
|
|
"RTCGAToolbox": {
|
|
"name": "RTCGAToolbox",
|
|
"version": "2.34.0",
|
|
"sha256": "0l4idk6gsrnm7laj1xkm6jwmyy5l90kphm21zk7y33cpnp2ryjwr",
|
|
"depends": ["BiocGenerics", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "RCurl", "RJSONIO", "RaggedExperiment", "S4Vectors", "SummarizedExperiment", "TCGAutils", "data_table", "httr", "rvest", "stringr"]
|
|
},
|
|
"RTN": {
|
|
"name": "RTN",
|
|
"version": "2.28.0",
|
|
"sha256": "09zd8z3wn26r7bamzq17slamydr73aqlx94zi0273npfggcwv4n1",
|
|
"depends": ["IRanges", "RedeR", "S4Vectors", "SummarizedExperiment", "car", "data_table", "igraph", "limma", "minet", "mixtools", "pheatmap", "pwr", "snow", "viper"]
|
|
},
|
|
"RTNduals": {
|
|
"name": "RTNduals",
|
|
"version": "1.28.0",
|
|
"sha256": "0idr55acbdi7bbcds9vp0sjv1px8dsmycll7z92f7l2xrk1mgyhp",
|
|
"depends": ["RTN"]
|
|
},
|
|
"RTNsurvival": {
|
|
"name": "RTNsurvival",
|
|
"version": "1.28.0",
|
|
"sha256": "1545jbis4gpcggw320kkrh7s2dllw4rwpq0qc95zm9v9yjxzzzk6",
|
|
"depends": ["RColorBrewer", "RTN", "RTNduals", "data_table", "dunn_test", "egg", "ggplot2", "pheatmap", "scales", "survival"]
|
|
},
|
|
"RTopper": {
|
|
"name": "RTopper",
|
|
"version": "1.50.0",
|
|
"sha256": "14y4qvx5iyiqghw4cwn1k3sn7i788iakfzssl0gqal0r6npdh9ib",
|
|
"depends": ["Biobase", "limma", "multtest"]
|
|
},
|
|
"RUVSeq": {
|
|
"name": "RUVSeq",
|
|
"version": "1.38.0",
|
|
"sha256": "0i91kjwransy6l217rmxfzfchb43h1sjk8ygf0y8a3rv6rp7ylfd",
|
|
"depends": ["Biobase", "EDASeq", "MASS", "edgeR"]
|
|
},
|
|
"RUVcorr": {
|
|
"name": "RUVcorr",
|
|
"version": "1.36.0",
|
|
"sha256": "05fga28l65h21b84pn6gn6vrgglnvpblmrz551qj2djrmzda3pn1",
|
|
"depends": ["BiocParallel", "MASS", "bladderbatch", "corrplot", "gridExtra", "lattice", "psych", "reshape2", "snowfall"]
|
|
},
|
|
"RUVnormalize": {
|
|
"name": "RUVnormalize",
|
|
"version": "1.38.0",
|
|
"sha256": "109q8cywgzxyc31hzjx73arffdhasblg7wk5gfwqcqfv2120r99c",
|
|
"depends": ["Biobase", "RUVnormalizeData"]
|
|
},
|
|
"RVS": {
|
|
"name": "RVS",
|
|
"version": "1.26.0",
|
|
"sha256": "10j84lhap7c74scar3gmk983zi6lhl8zvawp9ap46qf8wrpnqp4k",
|
|
"depends": ["GENLIB", "R_utils", "gRain", "kinship2", "snpStats"]
|
|
},
|
|
"RadioGx": {
|
|
"name": "RadioGx",
|
|
"version": "2.8.0",
|
|
"sha256": "0ykw5hm48fh6xqxdfgmjjbqdd5hp4dmhnykg3zkmb9wrcfp4zx7f",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "CoreGx", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "assertthat", "caTools", "data_table", "downloader", "magicaxis", "matrixStats", "reshape2", "scales"]
|
|
},
|
|
"RaggedExperiment": {
|
|
"name": "RaggedExperiment",
|
|
"version": "1.28.1",
|
|
"sha256": "0xfg88r5nh0qswsfc3mm595jmf2w8s2dr032apd15b3kc40hjlr9",
|
|
"depends": ["BiocBaseUtils", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "MatrixGenerics", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"RankProd": {
|
|
"name": "RankProd",
|
|
"version": "3.30.0",
|
|
"sha256": "0y9c833zn3l4492cl7b71x5g7q6kr81zh2f3v9x4l52q6mw6l5qh",
|
|
"depends": ["Rmpfr", "gmp"]
|
|
},
|
|
"RareVariantVis": {
|
|
"name": "RareVariantVis",
|
|
"version": "2.32.0",
|
|
"sha256": "08siw7yzx1jd3cgg2mirc27ycpk6wdvv4vcwzln1ps35nkhy52in",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "GenomicScores", "IRanges", "S4Vectors", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "VariantAnnotation", "googleVis", "gtools", "phastCons100way_UCSC_hg19"]
|
|
},
|
|
"Rarr": {
|
|
"name": "Rarr",
|
|
"version": "1.4.0",
|
|
"sha256": "0ks576wqzywlk07wlb116sjzs1b1103mwrd5410qya13mwq6yx62",
|
|
"depends": ["R_utils", "httr", "jsonlite", "paws_storage", "stringr"]
|
|
},
|
|
"RbcBook1": {
|
|
"name": "RbcBook1",
|
|
"version": "1.72.0",
|
|
"sha256": "00y8lzfz7z9zmzrg9qyiwkwbcn2xsg6xiphzjvz02j34ghig43ng",
|
|
"depends": ["Biobase", "graph", "rpart"]
|
|
},
|
|
"Rbec": {
|
|
"name": "Rbec",
|
|
"version": "1.12.0",
|
|
"sha256": "1cf5g2q8ak45ipb0cvgnrqy4s131g9lnchzs6g7mfj7b6ynkgp6d",
|
|
"depends": ["Rcpp", "dada2", "doParallel", "foreach", "ggplot2", "readr"]
|
|
},
|
|
"Rbowtie": {
|
|
"name": "Rbowtie",
|
|
"version": "1.44.0",
|
|
"sha256": "1in3qani4xh5m5zpbny1nbsvh60ahs36bas8hplkdpd8hnhfla56",
|
|
"depends": []
|
|
},
|
|
"Rbowtie2": {
|
|
"name": "Rbowtie2",
|
|
"version": "2.10.0",
|
|
"sha256": "1spwpbx1jjfjcxbwjkl64ccp9k8xs6lm828546qddsgp20y3bhgp",
|
|
"depends": ["Rsamtools", "magrittr"]
|
|
},
|
|
"Rbwa": {
|
|
"name": "Rbwa",
|
|
"version": "1.8.0",
|
|
"sha256": "0qbipwgdfgzdkrlvwmx0nbi8v4frv0r2vl8hd2mypf205mv4qb8b",
|
|
"depends": []
|
|
},
|
|
"RcisTarget": {
|
|
"name": "RcisTarget",
|
|
"version": "1.24.0",
|
|
"sha256": "1856jnvqacr12j5hnnl4w2abjjd7qvkz7cs8yhbnqpy1896wki0v",
|
|
"depends": ["AUCell", "BiocGenerics", "GSEABase", "GenomeInfoDb", "GenomicRanges", "R_utils", "S4Vectors", "SummarizedExperiment", "arrow", "data_table", "dplyr", "tibble", "zoo"]
|
|
},
|
|
"Rcollectl": {
|
|
"name": "Rcollectl",
|
|
"version": "1.4.0",
|
|
"sha256": "1i1a8imzdangilmww0r3l75npc19xbija9lj13nbwj1vnwb85cpa",
|
|
"depends": ["ggplot2", "lubridate", "processx"]
|
|
},
|
|
"Rcpi": {
|
|
"name": "Rcpi",
|
|
"version": "1.40.1",
|
|
"sha256": "01p3z2ylkxvcyrzd9yizw2niw3fv3kn30is4cniy6r68qhm1msxy",
|
|
"depends": ["Biostrings", "GOSemSim", "curl", "doParallel", "foreach", "httr2", "rjson", "rlang"]
|
|
},
|
|
"Rcwl": {
|
|
"name": "Rcwl",
|
|
"version": "1.20.0",
|
|
"sha256": "02pxjcf3bbvv4hh2vr796b3pyd8vxh5v4g2bkgicsc0jw40554rr",
|
|
"depends": ["BiocParallel", "DiagrammeR", "R_utils", "S4Vectors", "basilisk", "batchtools", "codetools", "shiny", "yaml"]
|
|
},
|
|
"RcwlPipelines": {
|
|
"name": "RcwlPipelines",
|
|
"version": "1.20.0",
|
|
"sha256": "1bivrgd9f431spg0gv1achs258rmyxcnggn7zh63z2nlskxx3pp1",
|
|
"depends": ["BiocFileCache", "Rcwl", "S4Vectors", "git2r", "httr", "rappdirs"]
|
|
},
|
|
"Rdisop": {
|
|
"name": "Rdisop",
|
|
"version": "1.64.0",
|
|
"sha256": "1gcg441mp6bdnzjkh4gg6zgjn4hnw5i8mdcvb1hfim4hsc7sdsxv",
|
|
"depends": ["Rcpp"]
|
|
},
|
|
"ReUseData": {
|
|
"name": "ReUseData",
|
|
"version": "1.4.0",
|
|
"sha256": "1dai0mxsnjmr6gs465mljfnydai276i5zjjbgxphgas1z3iv9sz6",
|
|
"depends": ["BiocFileCache", "Rcwl", "RcwlPipelines", "S4Vectors", "basilisk", "jsonlite", "yaml"]
|
|
},
|
|
"ReactomeContentService4R": {
|
|
"name": "ReactomeContentService4R",
|
|
"version": "1.12.0",
|
|
"sha256": "1qqrkki9v3ggwqv88n7w3wp50y4gxvkixrg1sad23vl08jd0rkl6",
|
|
"depends": ["data_table", "doParallel", "foreach", "httr", "jsonlite", "magick"]
|
|
},
|
|
"ReactomeGSA": {
|
|
"name": "ReactomeGSA",
|
|
"version": "1.18.0",
|
|
"sha256": "188c0vrbq01gy4zhsf9wsg9amjf9434g0fzf3lnwzxdm0xzw2b33",
|
|
"depends": ["Biobase", "RColorBrewer", "dplyr", "ggplot2", "gplots", "httr", "jsonlite", "progress", "tidyr"]
|
|
},
|
|
"ReactomeGraph4R": {
|
|
"name": "ReactomeGraph4R",
|
|
"version": "1.12.0",
|
|
"sha256": "17xkrqyp5wdsdd0gpplsk3qfsr8sgf1ap0vz6v34xlhbmzdq3rs8",
|
|
"depends": ["ReactomeContentService4R", "data_table", "doParallel", "foreach", "getPass", "jsonlite", "magrittr", "neo4r", "purrr", "rlang"]
|
|
},
|
|
"ReactomePA": {
|
|
"name": "ReactomePA",
|
|
"version": "1.48.0",
|
|
"sha256": "0i5jrdzg6zcs1jx0lryq8d467lxi1hvd1x6p74ywwxga88p46zk6",
|
|
"depends": ["AnnotationDbi", "DOSE", "enrichplot", "ggplot2", "ggraph", "graphite", "gson", "igraph", "reactome_db"]
|
|
},
|
|
"ReadqPCR": {
|
|
"name": "ReadqPCR",
|
|
"version": "1.50.0",
|
|
"sha256": "1bv65my3azx1v16qdcb5s0bycykdga6kfpvhj8av6g0cyrq6xj8y",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"RedeR": {
|
|
"name": "RedeR",
|
|
"version": "3.0.0",
|
|
"sha256": "1x4435mcm4f8w5a7y54269f3npwxz26347v77ngmnjj32nfch8l9",
|
|
"depends": ["igraph", "scales"]
|
|
},
|
|
"RedisParam": {
|
|
"name": "RedisParam",
|
|
"version": "1.6.0",
|
|
"sha256": "1j4h509gl9grgy8npj2fxnvm2kx0q41bcfid26v7p91c6i33gzsj",
|
|
"depends": ["BiocParallel", "futile_logger", "redux", "withr"]
|
|
},
|
|
"RegEnrich": {
|
|
"name": "RegEnrich",
|
|
"version": "1.14.0",
|
|
"sha256": "1gma0xsw72pi3shxlnvx3ynkvys2hv3g95gx2x0whdsarxwki34h",
|
|
"depends": ["BiocParallel", "BiocSet", "BiocStyle", "DESeq2", "DOSE", "S4Vectors", "SummarizedExperiment", "WGCNA", "dplyr", "fgsea", "ggplot2", "limma", "magrittr", "randomForest", "reshape2", "tibble"]
|
|
},
|
|
"RegionalST": {
|
|
"name": "RegionalST",
|
|
"version": "1.2.0",
|
|
"sha256": "0gzc1m6ds6bnkq26bpq9i0mbpyw2biwnn07d30cdzipfsxbjdhlk",
|
|
"depends": ["BayesSpace", "RColorBrewer", "S4Vectors", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "TOAST", "assertthat", "colorspace", "dplyr", "fgsea", "ggplot2", "gridExtra", "magrittr", "scater", "shiny", "tibble"]
|
|
},
|
|
"RepViz": {
|
|
"name": "RepViz",
|
|
"version": "1.20.0",
|
|
"sha256": "1rww94wdpswy27i26zn25g8j2s1l14xmljhkz6fl45jmkfn4cqxa",
|
|
"depends": ["GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "biomaRt"]
|
|
},
|
|
"Repitools": {
|
|
"name": "Repitools",
|
|
"version": "1.50.0",
|
|
"sha256": "1ypiiwi7kp5j8ayz3c9b1gzsy7kd1iw3zv35hrg7pb5fry63dg9g",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "DNAcopy", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "Rsamtools", "Rsolnp", "S4Vectors", "cluster", "edgeR", "gplots", "gsmoothr", "rtracklayer"]
|
|
},
|
|
"ReportingTools": {
|
|
"name": "ReportingTools",
|
|
"version": "2.44.0",
|
|
"sha256": "0vq46dj2v3imjmf6cw8mab6k9v4rrc5r2vh100jjlsm3z15gvl17",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "Category", "DESeq2", "GOstats", "GSEABase", "IRanges", "PFAM_db", "R_utils", "XML", "annotate", "edgeR", "ggbio", "ggplot2", "hwriter", "knitr", "lattice", "limma"]
|
|
},
|
|
"ResidualMatrix": {
|
|
"name": "ResidualMatrix",
|
|
"version": "1.14.1",
|
|
"sha256": "1zq75i20kv0lgnh19zbhw5khxrag627ynqjvh3rj5kxbhj1l2z7c",
|
|
"depends": ["DelayedArray", "Matrix", "S4Vectors"]
|
|
},
|
|
"Rfastp": {
|
|
"name": "Rfastp",
|
|
"version": "1.14.0",
|
|
"sha256": "1zk2zm08nv8i9q39s7dbppd3pk5kxki17x00971wwsfvl261hnsy",
|
|
"depends": ["Rcpp", "Rhtslib", "ggplot2", "reshape2", "rjson", "zlibbioc"]
|
|
},
|
|
"RgnTX": {
|
|
"name": "RgnTX",
|
|
"version": "1.6.0",
|
|
"sha256": "15mw5j8wjbzygqj1v5pqh0dz6n37y55p08yi884hpw7sn9dwkfsw",
|
|
"depends": ["GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "ggplot2", "regioneR"]
|
|
},
|
|
"Rgraphviz": {
|
|
"name": "Rgraphviz",
|
|
"version": "2.48.0",
|
|
"sha256": "09i174a867vqyb6677sj88lk6bpfc4ajsmjgjkd7f7q66j46q655",
|
|
"depends": ["graph"]
|
|
},
|
|
"Rhdf5lib": {
|
|
"name": "Rhdf5lib",
|
|
"version": "1.26.0",
|
|
"sha256": "0q4ix3nzr69pmwm6vdna51yxlqi8frch0xyv6wmiy35n67d4fcab",
|
|
"depends": []
|
|
},
|
|
"Rhisat2": {
|
|
"name": "Rhisat2",
|
|
"version": "1.20.0",
|
|
"sha256": "0a7k9p08gq537275r7dfzh34ycxx8h4fmac74jimwhsa420793r5",
|
|
"depends": ["GenomicRanges", "SGSeq", "txdbmaker"]
|
|
},
|
|
"Rhtslib": {
|
|
"name": "Rhtslib",
|
|
"version": "3.0.0",
|
|
"sha256": "0497b43wxcfqyr4k30f0xq7yillb4fz0gqiqxxp66gvnqv4wiv6v",
|
|
"depends": ["zlibbioc"]
|
|
},
|
|
"RiboCrypt": {
|
|
"name": "RiboCrypt",
|
|
"version": "1.10.0",
|
|
"sha256": "0ay8yl1fc4iizina4aqvyjr6iqpc7dr457l7w4p3849d3i160304",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "NGLVieweR", "ORFik", "RCurl", "bslib", "data_table", "dplyr", "ggplot2", "htmlwidgets", "httr", "jsonlite", "knitr", "markdown", "plotly", "rlang", "shiny", "shinycssloaders", "shinyhelper", "shinyjqui", "stringr"]
|
|
},
|
|
"RiboDiPA": {
|
|
"name": "RiboDiPA",
|
|
"version": "1.12.0",
|
|
"sha256": "0an2hbjzi514kb0m4l8i46w4zyxp510vw2f3xdmldjdyv5yw4v1z",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "DESeq2", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rcpp", "Rsamtools", "S4Vectors", "data_table", "doParallel", "elitism", "foreach", "ggplot2", "matrixStats", "qvalue", "reldist", "txdbmaker"]
|
|
},
|
|
"RiboProfiling": {
|
|
"name": "RiboProfiling",
|
|
"version": "1.34.0",
|
|
"sha256": "0h0sxmg4knsarh7w7dnp539cs9sfxjw4413q1yyyz3gbi23bzww4",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "data_table", "ggbio", "ggplot2", "plyr", "reshape2", "rtracklayer", "sqldf"]
|
|
},
|
|
"Rmagpie": {
|
|
"name": "Rmagpie",
|
|
"version": "1.60.0",
|
|
"sha256": "146db5sz1kkgpwdarll8ca6ndb0l48hxnfi7cp39zllrhwfmwzdm",
|
|
"depends": ["Biobase", "e1071", "kernlab", "pamr"]
|
|
},
|
|
"Rmmquant": {
|
|
"name": "Rmmquant",
|
|
"version": "1.22.0",
|
|
"sha256": "1jshnr4xph4glrk0pl3r8pklxnzg495m74yx25xjqg8avwahwvw4",
|
|
"depends": ["BiocStyle", "DESeq2", "GenomicRanges", "Rcpp", "S4Vectors", "SummarizedExperiment", "TBX20BamSubset", "TxDb_Mmusculus_UCSC_mm9_knownGene", "apeglm", "devtools", "org_Mm_eg_db"]
|
|
},
|
|
"RnBeads": {
|
|
"name": "RnBeads",
|
|
"version": "2.22.0",
|
|
"sha256": "0v7dzmbyskq0vmja09dncg1g50dl3iycg883swb7lfvi4xzr42vj",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "cluster", "ff", "fields", "ggplot2", "gplots", "gridExtra", "illuminaio", "limma", "matrixStats", "methylumi", "plyr"]
|
|
},
|
|
"RnaSeqSampleSize": {
|
|
"name": "RnaSeqSampleSize",
|
|
"version": "2.14.0",
|
|
"sha256": "0zfmrpfnz8bka6z4408bl5mzv1yr7648qizy8b93qc903vx3zhvs",
|
|
"depends": ["KEGGREST", "Rcpp", "RnaSeqSampleSizeData", "SummarizedExperiment", "biomaRt", "dplyr", "edgeR", "ggplot2", "ggpubr", "heatmap3", "matlab", "recount", "tidyr", "tidyselect"]
|
|
},
|
|
"Rnits": {
|
|
"name": "Rnits",
|
|
"version": "1.38.0",
|
|
"sha256": "1c4l6flfyamnjhb3givw4icx6cbl2pnrvscalrywyhxpqk64cirv",
|
|
"depends": ["Biobase", "affy", "boot", "ggplot2", "impute", "limma", "qvalue", "reshape2"]
|
|
},
|
|
"RolDE": {
|
|
"name": "RolDE",
|
|
"version": "1.8.0",
|
|
"sha256": "11ishff55z086qgc28vxamc5blfxs95qn758f5cgvf9rfr8h64rz",
|
|
"depends": ["ROTS", "SummarizedExperiment", "doParallel", "doRNG", "foreach", "matrixStats", "nlme", "qvalue", "rngtools"]
|
|
},
|
|
"Rqc": {
|
|
"name": "Rqc",
|
|
"version": "1.38.0",
|
|
"sha256": "0szd5ygcvpaiwqss8galxzxpslpfh93rk42s865v0qpv0s9v9x0l",
|
|
"depends": ["BiocGenerics", "BiocParallel", "BiocStyle", "Biostrings", "GenomicAlignments", "GenomicFiles", "IRanges", "Rcpp", "Rsamtools", "S4Vectors", "ShortRead", "biovizBase", "ggplot2", "knitr", "markdown", "plyr", "reshape2", "shiny"]
|
|
},
|
|
"Rsamtools": {
|
|
"name": "Rsamtools",
|
|
"version": "2.20.0",
|
|
"sha256": "04lz0dzwmgi8j9wyspbmjln6yb5fv4f538nqyrfd31d0g16937b8",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rhtslib", "S4Vectors", "XVector", "bitops", "zlibbioc"]
|
|
},
|
|
"Rsubread": {
|
|
"name": "Rsubread",
|
|
"version": "2.18.0",
|
|
"sha256": "0nd5b1k0dsxpf93wqx01fgbvk40jcfs7b7w692bsx620lm42ipfg",
|
|
"depends": ["Matrix"]
|
|
},
|
|
"Rtpca": {
|
|
"name": "Rtpca",
|
|
"version": "1.14.0",
|
|
"sha256": "1prrc1ys74pfr0cgn9qx2is9zzpybvapi34xp1yxnq1xcgynkrxv",
|
|
"depends": ["Biobase", "dplyr", "fdrtool", "ggplot2", "pROC", "tibble", "tidyr"]
|
|
},
|
|
"Rtreemix": {
|
|
"name": "Rtreemix",
|
|
"version": "1.66.0",
|
|
"sha256": "0rlhrzpyv95mm9wdqmn2wqqkgb3nm3irqrffba81ip7mn9fmdjsw",
|
|
"depends": ["Biobase", "Hmisc", "graph"]
|
|
},
|
|
"Rvisdiff": {
|
|
"name": "Rvisdiff",
|
|
"version": "1.2.0",
|
|
"sha256": "1s4jhg79s2q71v2y5h6ihwr05giyv987kncr22g60frsdsav2hcm",
|
|
"depends": ["edgeR"]
|
|
},
|
|
"S4Arrays": {
|
|
"name": "S4Arrays",
|
|
"version": "1.4.1",
|
|
"sha256": "0wdzp1q6hyks4afm217yl2n770jsqaqxix71imni1r0qbxdfkdwl",
|
|
"depends": ["BiocGenerics", "IRanges", "Matrix", "S4Vectors", "abind", "crayon"]
|
|
},
|
|
"S4Vectors": {
|
|
"name": "S4Vectors",
|
|
"version": "0.42.1",
|
|
"sha256": "080fr8f4lqzvn73y50wgz19w0a0hvkd9ilwswmv5gi34sihp8795",
|
|
"depends": ["BiocGenerics"]
|
|
},
|
|
"SAIGEgds": {
|
|
"name": "SAIGEgds",
|
|
"version": "2.4.1",
|
|
"sha256": "1nzr62hg99z0zzp0y74nis3xxgjsw2qc4w5xcm8p8j9kh9w7rwzk",
|
|
"depends": ["CompQuadForm", "Matrix", "Rcpp", "RcppArmadillo", "RcppParallel", "SeqArray", "gdsfmt", "survey"]
|
|
},
|
|
"SARC": {
|
|
"name": "SARC",
|
|
"version": "1.2.0",
|
|
"sha256": "11hiz7lzhkp2459c92x0i9kia7yc8zbl7n7c3wd66g2pbzfjzv6f",
|
|
"depends": ["DescTools", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "RaggedExperiment", "data_table", "ggplot2", "gridExtra", "gtable", "metap", "multtest", "plotly", "plyranges", "reshape2", "scales", "tidyverse"]
|
|
},
|
|
"SBGNview": {
|
|
"name": "SBGNview",
|
|
"version": "1.18.0",
|
|
"sha256": "1smxxwyc03m6bbw1l5bzfl6q2g2f93z53z8iyk42lwkfp26zv6i5",
|
|
"depends": ["AnnotationDbi", "KEGGREST", "Rdpack", "SBGNview_data", "SummarizedExperiment", "bookdown", "httr", "igraph", "knitr", "pathview", "rmarkdown", "rsvg", "xml2"]
|
|
},
|
|
"SBMLR": {
|
|
"name": "SBMLR",
|
|
"version": "2.0.0",
|
|
"sha256": "1h0pwlq229hbvh6ab2sjv67zd24i15xn4jh7k8s64faw4gw8ji14",
|
|
"depends": ["XML", "deSolve"]
|
|
},
|
|
"SC3": {
|
|
"name": "SC3",
|
|
"version": "1.32.0",
|
|
"sha256": "0ylpk7jjqmy7g1s5ah5zwrcmqplhjm0rpnw74kn5mdra3d7xdsnr",
|
|
"depends": ["BiocGenerics", "ROCR", "Rcpp", "RcppArmadillo", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "WriteXLS", "cluster", "doParallel", "doRNG", "e1071", "foreach", "ggplot2", "pheatmap", "robustbase", "rrcov", "shiny"]
|
|
},
|
|
"SCAN_UPC": {
|
|
"name": "SCAN.UPC",
|
|
"version": "2.46.0",
|
|
"sha256": "1awsy1xfsl90yxqc2qir7p51d34jddcqg5q02cc0925w6yqanaci",
|
|
"depends": ["Biobase", "Biostrings", "GEOquery", "IRanges", "MASS", "affy", "affyio", "foreach", "oligo", "sva"]
|
|
},
|
|
"SCANVIS": {
|
|
"name": "SCANVIS",
|
|
"version": "1.18.0",
|
|
"sha256": "0nywyi5bp3qgh9xaydhpsdh5nvq0ybfvjqhygrs7lypanj4n1k7p",
|
|
"depends": ["IRanges", "RCurl", "plotrix", "rtracklayer"]
|
|
},
|
|
"SCArray": {
|
|
"name": "SCArray",
|
|
"version": "1.12.0",
|
|
"sha256": "1a5343azhqfagkf2cbszaisn505aqc49hxki42qb92n5x3bgqbnb",
|
|
"depends": ["BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "gdsfmt"]
|
|
},
|
|
"SCArray_sat": {
|
|
"name": "SCArray.sat",
|
|
"version": "1.4.0",
|
|
"sha256": "0y94f6rbjzn2jqkww808vysfdk6j3qw81v79w087d3adiywkl9xj",
|
|
"depends": ["BiocGenerics", "BiocParallel", "BiocSingular", "DelayedArray", "Matrix", "S4Vectors", "SCArray", "Seurat", "SeuratObject", "SummarizedExperiment", "gdsfmt"]
|
|
},
|
|
"SCBN": {
|
|
"name": "SCBN",
|
|
"version": "1.22.0",
|
|
"sha256": "0bf18gc9ysi35x73ij4s4r3zmg0vys4hy4gy2x0hkxlrm4gpgx4r",
|
|
"depends": []
|
|
},
|
|
"SCFA": {
|
|
"name": "SCFA",
|
|
"version": "1.14.0",
|
|
"sha256": "1avbvkky6m5f5cbfbhabapidz6ypngddrkg2dss7y0a7gy48634x",
|
|
"depends": ["BiocParallel", "Matrix", "RhpcBLASctl", "cluster", "coro", "glmnet", "igraph", "matrixStats", "psych", "survival", "torch"]
|
|
},
|
|
"SCOPE": {
|
|
"name": "SCOPE",
|
|
"version": "1.16.0",
|
|
"sha256": "1x7kad59rav9rrjkqkdfbziflx3bngclz4mwkfkf53yl8km62pw0",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BiocGenerics", "Biostrings", "DNAcopy", "DescTools", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "doParallel", "foreach", "gplots"]
|
|
},
|
|
"SCnorm": {
|
|
"name": "SCnorm",
|
|
"version": "1.26.0",
|
|
"sha256": "11q8g6fmsib4ms2ks003v9qc8n4rzchbcd02xnbah97qgxrmicbm",
|
|
"depends": ["BiocGenerics", "BiocParallel", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cluster", "data_table", "forcats", "ggplot2", "moments", "quantreg"]
|
|
},
|
|
"SDAMS": {
|
|
"name": "SDAMS",
|
|
"version": "1.24.0",
|
|
"sha256": "088k6bxdmkwv4zw8pvj2f4hl4b5jhrmlnvsh9mcqga7pmf5ir96b",
|
|
"depends": ["SummarizedExperiment", "qvalue", "trust"]
|
|
},
|
|
"SELEX": {
|
|
"name": "SELEX",
|
|
"version": "1.36.0",
|
|
"sha256": "0j4y7mijxgkcj89q1qf0ab9rmsaxzmvbxlnpy0x29bam424vzc73",
|
|
"depends": ["Biostrings", "rJava"]
|
|
},
|
|
"SEtools": {
|
|
"name": "SEtools",
|
|
"version": "1.18.0",
|
|
"sha256": "0j4pn85icyf1jwcfjr8r9049lrhglp3s5ighmcp9hvsjws04scis",
|
|
"depends": ["BiocParallel", "DESeq2", "Matrix", "S4Vectors", "SummarizedExperiment", "circlize", "data_table", "edgeR", "openxlsx", "pheatmap", "sechm", "sva"]
|
|
},
|
|
"SGCP": {
|
|
"name": "SGCP",
|
|
"version": "1.4.1",
|
|
"sha256": "0l16002hzn3myadjkdyj1s7l7kql6f3gd8fjm8rklgs8x6pblk8c",
|
|
"depends": ["DescTools", "GO_db", "GOstats", "RColorBrewer", "RSpectra", "Rgraphviz", "SummarizedExperiment", "annotate", "caret", "dplyr", "expm", "genefilter", "ggplot2", "ggridges", "graph", "openxlsx", "org_Hs_eg_db", "plyr", "reshape2", "xtable"]
|
|
},
|
|
"SGSeq": {
|
|
"name": "SGSeq",
|
|
"version": "1.38.0",
|
|
"sha256": "1i3dg3fn648mzy49m15vbzr3wfnk91xyph5j4sc7ss978l25h17n",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RUnit", "Rsamtools", "S4Vectors", "SummarizedExperiment", "igraph", "rtracklayer"]
|
|
},
|
|
"SIAMCAT": {
|
|
"name": "SIAMCAT",
|
|
"version": "2.8.0",
|
|
"sha256": "00l9w395fg6r8p2jzz85x1djlj4h7y86dgs8x5xf14bn1am9q0sh",
|
|
"depends": ["LiblineaR", "PRROC", "RColorBrewer", "beanplot", "corrplot", "glmnet", "gridBase", "gridExtra", "infotheo", "lgr", "lmerTest", "matrixStats", "mlr3", "mlr3learners", "mlr3tuning", "pROC", "paradox", "phyloseq", "progress", "scales", "stringr"]
|
|
},
|
|
"SICtools": {
|
|
"name": "SICtools",
|
|
"version": "1.34.0",
|
|
"sha256": "0ymk18aj4r0526xqqkrvd75p4jrgrq2wshx7mqh2wj7nizjfn8fv",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Rsamtools", "doParallel", "matrixStats", "plyr", "stringr"]
|
|
},
|
|
"SIM": {
|
|
"name": "SIM",
|
|
"version": "1.74.0",
|
|
"sha256": "01mvdwhbpikpg8vfxr73nsshdr185ds80yjavzss53cwkv6zvp4h",
|
|
"depends": ["globaltest", "quantreg", "quantsmooth"]
|
|
},
|
|
"SIMAT": {
|
|
"name": "SIMAT",
|
|
"version": "1.36.0",
|
|
"sha256": "1gwcr7lfsnzvlx0v93adlxmzdcx9rwfmhacpz3m8q26jm4vjmqib",
|
|
"depends": ["Rcpp", "ggplot2", "mzR", "reshape2"]
|
|
},
|
|
"SIMD": {
|
|
"name": "SIMD",
|
|
"version": "1.22.0",
|
|
"sha256": "1sw7mw4nravw4v9mhfcppnz0867szaynjs10lhpjs2a0p6mll0px",
|
|
"depends": ["edgeR", "methylMnM", "statmod"]
|
|
},
|
|
"SIMLR": {
|
|
"name": "SIMLR",
|
|
"version": "1.30.0",
|
|
"sha256": "18mld0yvkmy1znsv3dkch6f8x9h9j20zm3qq84ggw0wsbgrrcm1z",
|
|
"depends": ["Matrix", "RSpectra", "Rcpp", "RcppAnnoy", "pracma"]
|
|
},
|
|
"SLqPCR": {
|
|
"name": "SLqPCR",
|
|
"version": "1.70.0",
|
|
"sha256": "0xr0kjy2bn8cprj4p7c9bi7wsrvfx6bxymnvdz5c50s9hc35h2ky",
|
|
"depends": []
|
|
},
|
|
"SMAD": {
|
|
"name": "SMAD",
|
|
"version": "1.20.0",
|
|
"sha256": "0rj4f38nlr3a5fmf0dqhqi7iln78lkvghv4w8yr2kcavnsl4lzar",
|
|
"depends": ["Rcpp", "RcppAlgos", "dplyr", "magrittr", "tidyr"]
|
|
},
|
|
"SMITE": {
|
|
"name": "SMITE",
|
|
"version": "1.32.0",
|
|
"sha256": "0dp4yas2gdwnvvbxdkid61j9c2a32cfcn3iw9nwijp6aqlv9rrv9",
|
|
"depends": ["AnnotationDbi", "BioNet", "Biobase", "GenomicRanges", "Hmisc", "IRanges", "KEGGREST", "S4Vectors", "geneLenDataBase", "ggplot2", "goseq", "igraph", "org_Hs_eg_db", "plyr", "reactome_db", "scales"]
|
|
},
|
|
"SNAGEE": {
|
|
"name": "SNAGEE",
|
|
"version": "1.44.0",
|
|
"sha256": "001afmi0hpjih8h8dl5w0llmccgd9g7lrz80fs7m2f3avz9hf2lc",
|
|
"depends": ["SNAGEEdata"]
|
|
},
|
|
"SNPRelate": {
|
|
"name": "SNPRelate",
|
|
"version": "1.38.0",
|
|
"sha256": "0znk9vvnahkypmkrx82r1ryp41xr675b4ddpgx0nl3708xhncz5f",
|
|
"depends": ["gdsfmt"]
|
|
},
|
|
"SNPediaR": {
|
|
"name": "SNPediaR",
|
|
"version": "1.30.0",
|
|
"sha256": "1p33fmjdpscc42wicx23xg1jbg2m18msf4rhg9pr52n6yzr42b8v",
|
|
"depends": ["RCurl", "jsonlite"]
|
|
},
|
|
"SNPhood": {
|
|
"name": "SNPhood",
|
|
"version": "1.34.0",
|
|
"sha256": "1jniag2yq67y6s9cw8722a58k86i0nbksc2dxyv3pni2wwdka6r6",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "DESeq2", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "checkmate", "cluster", "data_table", "ggplot2", "gridExtra", "lattice", "reshape2", "scales"]
|
|
},
|
|
"SOMNiBUS": {
|
|
"name": "SOMNiBUS",
|
|
"version": "1.12.0",
|
|
"sha256": "0p33r1ibpnln2rn4ls23prg7nmxznki9x7jc7qg3gc5fxip5b9n6",
|
|
"depends": ["BiocManager", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "VGAM", "annotatr", "bsseq", "data_table", "ggplot2", "mgcv", "reshape2", "rtracklayer", "tidyr", "yaml"]
|
|
},
|
|
"SPEM": {
|
|
"name": "SPEM",
|
|
"version": "1.44.0",
|
|
"sha256": "0ysgwvx8wlq3b1qyw5dlsxxglvrmbahf4r98g6shv6y8pj50yhg7",
|
|
"depends": ["Biobase", "Rsolnp"]
|
|
},
|
|
"SPIA": {
|
|
"name": "SPIA",
|
|
"version": "2.56.0",
|
|
"sha256": "0ank9y5p21whqfni56kx662cli8508s6l89d83c54nimyn1kqs48",
|
|
"depends": ["KEGGgraph"]
|
|
},
|
|
"SPIAT": {
|
|
"name": "SPIAT",
|
|
"version": "1.6.2",
|
|
"sha256": "0if22cin355bq5bz8cn56041h8rszg2wf00sljzcac3mv2k1bgs5",
|
|
"depends": ["RANN", "SpatialExperiment", "SummarizedExperiment", "apcluster", "dbscan", "dittoSeq", "dplyr", "ggplot2", "gridExtra", "gtools", "mmand", "pracma", "raster", "reshape2", "rlang", "sp", "spatstat_explore", "spatstat_geom", "tibble", "vroom"]
|
|
},
|
|
"SPLINTER": {
|
|
"name": "SPLINTER",
|
|
"version": "1.30.0",
|
|
"sha256": "1x9lak4s7rhllnczr4n7a88haq4a36pmxbrgd2m7v69nyzxlab9w",
|
|
"depends": ["BSgenome_Mmusculus_UCSC_mm9", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "S4Vectors", "biomaRt", "ggplot2", "googleVis", "plyr", "pwalign", "seqLogo", "stringr"]
|
|
},
|
|
"SPONGE": {
|
|
"name": "SPONGE",
|
|
"version": "1.26.1",
|
|
"sha256": "01sfkdd01l78z4p494080pq5f6wa65lp2m9ny5zbls7ibz9jpl48",
|
|
"depends": ["Biobase", "ComplexHeatmap", "MASS", "MetBrewer", "biomaRt", "caret", "cvms", "data_table", "doRNG", "dplyr", "expm", "foreach", "gRbase", "ggplot2", "ggpubr", "ggridges", "glmnet", "igraph", "iterators", "logging", "ppcor", "randomForest", "rlang", "stringr", "tidyr", "tidyverse", "tnet"]
|
|
},
|
|
"SPOTlight": {
|
|
"name": "SPOTlight",
|
|
"version": "1.8.0",
|
|
"sha256": "08cnlm6l34gp2spy2x08jr6abm58wrana1930jzwvvgm0mql9nzb",
|
|
"depends": ["Matrix", "NMF", "SingleCellExperiment", "ggplot2", "matrixStats", "nnls", "sparseMatrixStats"]
|
|
},
|
|
"SPsimSeq": {
|
|
"name": "SPsimSeq",
|
|
"version": "1.14.0",
|
|
"sha256": "09n39bgbx8xkngdc056lz1p20375w7fljmgnkg7vacjvp288y2pi",
|
|
"depends": ["Hmisc", "SingleCellExperiment", "WGCNA", "edgeR", "fitdistrplus", "limma", "mvtnorm", "phyloseq"]
|
|
},
|
|
"SQLDataFrame": {
|
|
"name": "SQLDataFrame",
|
|
"version": "1.18.0",
|
|
"sha256": "1fdf6dvrkg5cjnlh9466dnmqjfg7dq7dj06qjc61zyshlvslxlwh",
|
|
"depends": ["BiocGenerics", "DBI", "DelayedArray", "RSQLite", "S4Vectors", "duckdb"]
|
|
},
|
|
"SRAdb": {
|
|
"name": "SRAdb",
|
|
"version": "1.66.0",
|
|
"sha256": "0qvqixmn8am90a4n5ydva630kkxr735y6kdcikp1q0k8pxxvbm0j",
|
|
"depends": ["GEOquery", "RCurl", "RSQLite", "graph"]
|
|
},
|
|
"STATegRa": {
|
|
"name": "STATegRa",
|
|
"version": "1.40.0",
|
|
"sha256": "1m78hixyjavvryfcyd5g3f898r7hcn1cwdwbv3i2b9yj7z6r7knv",
|
|
"depends": ["Biobase", "MASS", "affy", "calibrate", "edgeR", "foreach", "ggplot2", "gplots", "gridExtra", "limma"]
|
|
},
|
|
"STRINGdb": {
|
|
"name": "STRINGdb",
|
|
"version": "2.16.4",
|
|
"sha256": "02fim09w9s38hvgp1g3fxqabd5r2fjysljlfrya2nr17drqkzqyx",
|
|
"depends": ["RColorBrewer", "gplots", "hash", "httr", "igraph", "plotrix", "plyr", "png", "sqldf"]
|
|
},
|
|
"STdeconvolve": {
|
|
"name": "STdeconvolve",
|
|
"version": "1.8.0",
|
|
"sha256": "0pyyxmh4bnavsdw6riv72y5m8l53mfr0lpiy9mh0qn57rlmw5fr9",
|
|
"depends": ["BiocParallel", "Matrix", "clue", "ggplot2", "mgcv", "reshape2", "scatterpie", "slam", "topicmodels", "viridis"]
|
|
},
|
|
"SUITOR": {
|
|
"name": "SUITOR",
|
|
"version": "1.6.0",
|
|
"sha256": "0wricb7fi87lrmasljhz0l7ya22yq3a2c6654k4v3x11z9zb2pl6",
|
|
"depends": ["BiocParallel", "ggplot2"]
|
|
},
|
|
"SVMDO": {
|
|
"name": "SVMDO",
|
|
"version": "1.4.0",
|
|
"sha256": "11cn7kffgssbjk307vxjr6i2cs94fn6hhz09dbx5qgg89m4gsdgi",
|
|
"depends": ["AnnotationDbi", "BSDA", "DOSE", "SummarizedExperiment", "caTools", "caret", "data_table", "dplyr", "e1071", "golem", "klaR", "nortest", "org_Hs_eg_db", "shiny", "shinyFiles", "shinytitle", "sjmisc", "survival"]
|
|
},
|
|
"SWATH2stats": {
|
|
"name": "SWATH2stats",
|
|
"version": "1.34.0",
|
|
"sha256": "052nzh5rhq3sp6vyibbiz2li32lnd5c719kqkdhwjsc8y3pcir00",
|
|
"depends": ["biomaRt", "data_table", "ggplot2", "reshape2"]
|
|
},
|
|
"SamSPECTRAL": {
|
|
"name": "SamSPECTRAL",
|
|
"version": "1.58.0",
|
|
"sha256": "05r3gl6ai9x0g8l2zl1p8fz7phklna82w0csvaiy8p5063p71gla",
|
|
"depends": []
|
|
},
|
|
"Scale4C": {
|
|
"name": "Scale4C",
|
|
"version": "1.26.0",
|
|
"sha256": "1h2swrs0vj9nzcr748jbk8c4bpnyc0gcq8bn5cyhd8lbd2b9xhv0",
|
|
"depends": ["GenomicRanges", "IRanges", "SummarizedExperiment", "smoothie"]
|
|
},
|
|
"ScaledMatrix": {
|
|
"name": "ScaledMatrix",
|
|
"version": "1.12.0",
|
|
"sha256": "0c6sp5nps31ygrr7lxxc2gbg19qsk107v23x8f6acqk1xwlsfppi",
|
|
"depends": ["DelayedArray", "Matrix", "S4Vectors"]
|
|
},
|
|
"Sconify": {
|
|
"name": "Sconify",
|
|
"version": "1.24.0",
|
|
"sha256": "07bz9bi71qxaipiw998jshm0wcwllhxfjmdxxxwg520rhmfs1g04",
|
|
"depends": ["FNN", "Rtsne", "dplyr", "flowCore", "ggplot2", "magrittr", "readr", "tibble"]
|
|
},
|
|
"ScreenR": {
|
|
"name": "ScreenR",
|
|
"version": "1.6.0",
|
|
"sha256": "00zaca403yk2dhsxhch51zcv5iwjgpnpz495ly98wv64hsm8b671",
|
|
"depends": ["dplyr", "edgeR", "ggplot2", "ggvenn", "limma", "magrittr", "patchwork", "purrr", "rlang", "scales", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"SemDist": {
|
|
"name": "SemDist",
|
|
"version": "1.38.0",
|
|
"sha256": "03qzsrxwnsb8spfmnsyiyz83r8476lq17n3a8hrm6i13hxdqps29",
|
|
"depends": ["AnnotationDbi", "GO_db", "annotate"]
|
|
},
|
|
"SeqArray": {
|
|
"name": "SeqArray",
|
|
"version": "1.44.1",
|
|
"sha256": "0b0i17kwa8141y568k2asiv46hz4z0lwiqjz687d96j6kz3r3zgg",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "gdsfmt"]
|
|
},
|
|
"SeqGSEA": {
|
|
"name": "SeqGSEA",
|
|
"version": "1.44.0",
|
|
"sha256": "0nxrl5ip289hqnp4g85njm55kpk81kr1l87la6r3r5h0qx5x01cy",
|
|
"depends": ["Biobase", "DESeq2", "biomaRt", "doParallel"]
|
|
},
|
|
"SeqGate": {
|
|
"name": "SeqGate",
|
|
"version": "1.14.0",
|
|
"sha256": "1qmrjqv9iky9bwq1d6bmmn4wnqlw8g352i154fjhgpwl8zvl75jk",
|
|
"depends": ["BiocManager", "GenomicRanges", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"SeqSQC": {
|
|
"name": "SeqSQC",
|
|
"version": "1.26.0",
|
|
"sha256": "0xsgr7wfy9qyjffb6spm0szknk3rbcx89k1ypdymybnjmndcslqf",
|
|
"depends": ["ExperimentHub", "GGally", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "SNPRelate", "e1071", "gdsfmt", "ggplot2", "plotly", "reshape2", "rmarkdown"]
|
|
},
|
|
"SeqVarTools": {
|
|
"name": "SeqVarTools",
|
|
"version": "1.42.0",
|
|
"sha256": "1mx3b21595n1v1fhy7lv67kdlxc2qdmkj0lm8gdnrs0l5f88jpgy",
|
|
"depends": ["Biobase", "BiocGenerics", "GWASExactHW", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "SeqArray", "data_table", "gdsfmt", "logistf"]
|
|
},
|
|
"SharedObject": {
|
|
"name": "SharedObject",
|
|
"version": "1.18.0",
|
|
"sha256": "133bn22q0lbyfr9dmsv462wajmh9v3108w42fc16q97lf9nf2023",
|
|
"depends": ["BH", "BiocGenerics", "Rcpp"]
|
|
},
|
|
"ShortRead": {
|
|
"name": "ShortRead",
|
|
"version": "1.62.0",
|
|
"sha256": "0x5iqx2k2xs5rwjch0bpcb8pgc0nhb571991yahdr8hsxwbas3jm",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rhtslib", "Rsamtools", "S4Vectors", "XVector", "hwriter", "lattice", "latticeExtra", "pwalign", "zlibbioc"]
|
|
},
|
|
"SiPSiC": {
|
|
"name": "SiPSiC",
|
|
"version": "1.4.3",
|
|
"sha256": "0h9bd5dcl53m482icwj1yiz3016dy9f54hmqvxn8qjzjhqy9xic2",
|
|
"depends": ["Matrix", "SingleCellExperiment"]
|
|
},
|
|
"SigCheck": {
|
|
"name": "SigCheck",
|
|
"version": "2.36.0",
|
|
"sha256": "1bnvk2v1mh615xhqab6129bgvv24azq9h9r1n2b3msbadwd0by1d",
|
|
"depends": ["Biobase", "BiocParallel", "MLInterfaces", "e1071", "survival"]
|
|
},
|
|
"SigFuge": {
|
|
"name": "SigFuge",
|
|
"version": "1.42.0",
|
|
"sha256": "1g262p2b0bapzvaknhnklxm6wvy1fdir631p34x433qvlwz9ss9i",
|
|
"depends": ["GenomicRanges", "ggplot2", "matlab", "reshape", "sigclust"]
|
|
},
|
|
"SigsPack": {
|
|
"name": "SigsPack",
|
|
"version": "1.18.0",
|
|
"sha256": "1dq3zqbbz5wbw2yf8w1sjgf1kd1nxap808ydvjr63zn10rm6m3vm",
|
|
"depends": ["BSgenome", "Biobase", "Biostrings", "GenomeInfoDb", "GenomicRanges", "SummarizedExperiment", "VariantAnnotation", "quadprog", "rtracklayer"]
|
|
},
|
|
"SimBu": {
|
|
"name": "SimBu",
|
|
"version": "1.6.0",
|
|
"sha256": "1may613jla4id0g9w4nxsfqm36ma82gmzykvnifi5hwa63jvi7pb",
|
|
"depends": ["BiocParallel", "Matrix", "RColorBrewer", "RCurl", "SummarizedExperiment", "basilisk", "data_table", "dplyr", "ggplot2", "phyloseq", "proxyC", "reticulate", "sparseMatrixStats", "tidyr"]
|
|
},
|
|
"SimFFPE": {
|
|
"name": "SimFFPE",
|
|
"version": "1.16.0",
|
|
"sha256": "1ccdk4g16bh1j420dspnh6il98j6ck6w2vgmqi82mf6js3cakd2z",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Rsamtools", "doParallel", "dplyr", "foreach", "truncnorm"]
|
|
},
|
|
"SingleCellAlleleExperiment": {
|
|
"name": "SingleCellAlleleExperiment",
|
|
"version": "1.0.0",
|
|
"sha256": "02dp5xcp7h93cl5k65qpwgcd4ygimcv5im9s9zqzpzmsf3q8gd5l",
|
|
"depends": ["BiocParallel", "DelayedArray", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment"]
|
|
},
|
|
"SingleCellExperiment": {
|
|
"name": "SingleCellExperiment",
|
|
"version": "1.26.0",
|
|
"sha256": "09sbk0r9g55x8fbvv5rbrygdw3km4bbrj9x0abqwld2nxnxq1q3n",
|
|
"depends": ["BiocGenerics", "DelayedArray", "GenomicRanges", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"SingleCellSignalR": {
|
|
"name": "SingleCellSignalR",
|
|
"version": "1.16.0",
|
|
"sha256": "0w7zj2fb45hzjx44kgn9qs3ab69v29vpl41nxvy931m32ndl5j04",
|
|
"depends": ["BiocManager", "Rtsne", "circlize", "data_table", "edgeR", "foreach", "gplots", "igraph", "limma", "multtest", "pheatmap", "scran", "stringr"]
|
|
},
|
|
"SingleMoleculeFootprinting": {
|
|
"name": "SingleMoleculeFootprinting",
|
|
"version": "1.12.0",
|
|
"sha256": "1hyqnzz05f2i0r2b5qs1j58py3b042aiffyd6ns2hkrgnr62yldw",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "QuasR", "RColorBrewer", "data_table", "plyr"]
|
|
},
|
|
"SingleR": {
|
|
"name": "SingleR",
|
|
"version": "2.6.0",
|
|
"sha256": "0l33bsi1zfj7f4hzlivhh89phhx0qscrwd08c28mqvcyp91mhq16",
|
|
"depends": ["BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "Matrix", "Rcpp", "S4Vectors", "SummarizedExperiment", "beachmat"]
|
|
},
|
|
"SomaticSignatures": {
|
|
"name": "SomaticSignatures",
|
|
"version": "2.40.0",
|
|
"sha256": "0yvn2famnyxkxnw4r1vr0vma6ym9kb343vqgaqkvcp3zpm1fi0p8",
|
|
"depends": ["Biobase", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "NMF", "S4Vectors", "VariantAnnotation", "ggbio", "ggplot2", "pcaMethods", "proxy", "reshape2"]
|
|
},
|
|
"SpaceMarkers": {
|
|
"name": "SpaceMarkers",
|
|
"version": "1.0.0",
|
|
"sha256": "02pb6jka0irzxmw0bzjns7jfc9jbbslg3c1xxjq1v9zf3s3is21a",
|
|
"depends": ["Matrix", "ape", "hdf5r", "jsonlite", "matrixStats", "matrixTests", "qvalue", "rstatix", "spatstat_explore", "spatstat_geom"]
|
|
},
|
|
"SpacePAC": {
|
|
"name": "SpacePAC",
|
|
"version": "1.42.0",
|
|
"sha256": "0a445gvv0x6c8765p5fjmd21i8ivnqr0jkzz6cczwkds7m0436az",
|
|
"depends": ["iPAC"]
|
|
},
|
|
"Spaniel": {
|
|
"name": "Spaniel",
|
|
"version": "1.18.0",
|
|
"sha256": "03iil9iyvv9sqmkpi3hn1vqx7a2187h1ng7bzfs302dj9dpcqfaj",
|
|
"depends": ["DropletUtils", "S4Vectors", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "igraph", "jpeg", "jsonlite", "magrittr", "png", "scater", "scran", "shiny"]
|
|
},
|
|
"SparseArray": {
|
|
"name": "SparseArray",
|
|
"version": "1.4.8",
|
|
"sha256": "1ahwv6ih1700h1sccv9wh7hr5bhdif0ji5jbmsprnhjxfgn6xidm",
|
|
"depends": ["BiocGenerics", "IRanges", "Matrix", "MatrixGenerics", "S4Arrays", "S4Vectors", "XVector", "matrixStats"]
|
|
},
|
|
"SparseSignatures": {
|
|
"name": "SparseSignatures",
|
|
"version": "2.14.0",
|
|
"sha256": "1wq1vs94pw2zb896pn6z1zk67adrqwlhrcy1sp3s3m9jw0yaiqbw",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "NMF", "data_table", "ggplot2", "gridExtra", "nnlasso", "nnls", "reshape2"]
|
|
},
|
|
"SpatialCPie": {
|
|
"name": "SpatialCPie",
|
|
"version": "1.20.0",
|
|
"sha256": "0pj6m66a1qw3hi37qa4k7gpl1b8r731v9wflzr0q1yw9gwl99nh8",
|
|
"depends": ["SummarizedExperiment", "colorspace", "data_table", "digest", "dplyr", "ggforce", "ggiraph", "ggplot2", "ggrepel", "igraph", "lpSolve", "purrr", "readr", "rlang", "shiny", "shinyWidgets", "shinycssloaders", "shinyjs", "tibble", "tidyr", "tidyselect", "zeallot"]
|
|
},
|
|
"SpatialDecon": {
|
|
"name": "SpatialDecon",
|
|
"version": "1.14.0",
|
|
"sha256": "0p49dwp380d642xkx92wlan70crb3jinsiawnkiif6i6ry7xdxjd",
|
|
"depends": ["Biobase", "GeomxTools", "Matrix", "SeuratObject", "logNormReg", "repmis"]
|
|
},
|
|
"SpatialExperiment": {
|
|
"name": "SpatialExperiment",
|
|
"version": "1.14.0",
|
|
"sha256": "0f04azs6wscibcpbmc1m21wjswmgr2b8gvd1n2yavya1li0xxm4r",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "magick", "rjson"]
|
|
},
|
|
"SpatialFeatureExperiment": {
|
|
"name": "SpatialFeatureExperiment",
|
|
"version": "1.6.1",
|
|
"sha256": "0p7wqhn72p538wrlkd51mac87sjd5bh2k0k9vkvvvpfls02vfx01",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocNeighbors", "BiocParallel", "DropletUtils", "EBImage", "Matrix", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "data_table", "lifecycle", "rjson", "rlang", "sf", "sfheaders", "spdep", "terra", "zeallot"]
|
|
},
|
|
"SpatialOmicsOverlay": {
|
|
"name": "SpatialOmicsOverlay",
|
|
"version": "1.4.0",
|
|
"sha256": "041kdamj3whw24c6075n0f1xxxba160s3c3kq2z7dqxwzks1k6rz",
|
|
"depends": ["Biobase", "BiocFileCache", "EBImage", "GeomxTools", "RBioFormats", "S4Vectors", "XML", "base64enc", "data_table", "dplyr", "ggplot2", "ggtext", "magick", "pbapply", "plotrix", "readxl", "scattermore", "stringr"]
|
|
},
|
|
"SpeCond": {
|
|
"name": "SpeCond",
|
|
"version": "1.58.0",
|
|
"sha256": "0gj9f0rycd4d8ixmivgy4ijs9pikjyhsj47k5hi8lgk9w7hnk8p4",
|
|
"depends": ["Biobase", "RColorBrewer", "fields", "hwriter", "mclust"]
|
|
},
|
|
"Spectra": {
|
|
"name": "Spectra",
|
|
"version": "1.14.1",
|
|
"sha256": "0mvfndd7n7varrzmv9cd3ygwbdn97x5qcgmzcxc6hr76lnkwp8al",
|
|
"depends": ["BiocGenerics", "BiocParallel", "IRanges", "MetaboCoreUtils", "MsCoreUtils", "ProtGenerics", "S4Vectors", "fs"]
|
|
},
|
|
"SpectralTAD": {
|
|
"name": "SpectralTAD",
|
|
"version": "1.20.0",
|
|
"sha256": "0rk15gs7bs5xhgl0k5qa0zyh0dcd2pr5qmqcrzvfh49bhbaylqbx",
|
|
"depends": ["BiocParallel", "GenomicRanges", "HiCcompare", "Matrix", "PRIMME", "cluster", "dplyr", "magrittr"]
|
|
},
|
|
"SpliceWiz": {
|
|
"name": "SpliceWiz",
|
|
"version": "1.6.2",
|
|
"sha256": "1n1j7fd8s2jkfh2w9a7101ckib0nmc9303mvnqxsij9x1934182r",
|
|
"depends": ["AnnotationHub", "BSgenome", "BiocFileCache", "BiocGenerics", "BiocParallel", "Biostrings", "DT", "DelayedArray", "DelayedMatrixStats", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "NxtIRFdata", "RColorBrewer", "RSQLite", "R_utils", "Rcpp", "RcppProgress", "S4Vectors", "SummarizedExperiment", "data_table", "fst", "genefilter", "ggplot2", "heatmaply", "htmltools", "magrittr", "matrixStats", "ompBAM", "patchwork", "pheatmap", "plotly", "progress", "rhandsontable", "rhdf5", "rtracklayer", "rvest", "scales", "shiny", "shinyFiles", "shinyWidgets", "shinydashboard", "stringi"]
|
|
},
|
|
"SplicingFactory": {
|
|
"name": "SplicingFactory",
|
|
"version": "1.12.0",
|
|
"sha256": "1iwkkbxviain77a64x41hc97c9bl77ayjpbjpkvmhwjh4hfdl9b7",
|
|
"depends": ["SummarizedExperiment"]
|
|
},
|
|
"SplicingGraphs": {
|
|
"name": "SplicingGraphs",
|
|
"version": "1.44.0",
|
|
"sha256": "1k4j23i7ffw1q18y48jhhj7g5k3vjihq619np2y7p7xc9wv0d45g",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rgraphviz", "Rsamtools", "S4Vectors", "graph", "igraph"]
|
|
},
|
|
"SpotClean": {
|
|
"name": "SpotClean",
|
|
"version": "1.6.1",
|
|
"sha256": "1wq1igfyadmzszacnwx8rfhm82xslzqzjkvx6xigs1fng0c7yn61",
|
|
"depends": ["Matrix", "RColorBrewer", "S4Vectors", "Seurat", "SpatialExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "readbitmap", "rhdf5", "rjson", "rlang", "tibble", "viridis"]
|
|
},
|
|
"SpotSweeper": {
|
|
"name": "SpotSweeper",
|
|
"version": "1.0.2",
|
|
"sha256": "058j58178k5c71ivwnb9l8japfldmdk6nqkzyxf9zmh3p9b7zkqz",
|
|
"depends": ["BiocNeighbors", "MASS", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "escheR", "ggplot2", "spatialEco"]
|
|
},
|
|
"Statial": {
|
|
"name": "Statial",
|
|
"version": "1.6.0",
|
|
"sha256": "0lzr0vc4zl5ryhs17l866w261ya9kxm7hx86g6xv16wr6fbw3mgv",
|
|
"depends": ["BiocParallel", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "concaveman", "data_table", "dplyr", "ggplot2", "limma", "magrittr", "plotly", "purrr", "ranger", "spatstat_explore", "spatstat_geom", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"Streamer": {
|
|
"name": "Streamer",
|
|
"version": "1.50.0",
|
|
"sha256": "0biizsjg9ysr2d1kyh962znikvgwli0zf0jn8khbs4prakjxmjyn",
|
|
"depends": ["BiocGenerics", "RBGL", "graph"]
|
|
},
|
|
"Structstrings": {
|
|
"name": "Structstrings",
|
|
"version": "1.20.0",
|
|
"sha256": "1ka9kixhgc9vfar18fzd8vd5ydmdkqa2s6xsmhlh927zrijs3vz9",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "S4Vectors", "XVector", "crayon", "stringi", "stringr"]
|
|
},
|
|
"StructuralVariantAnnotation": {
|
|
"name": "StructuralVariantAnnotation",
|
|
"version": "1.20.0",
|
|
"sha256": "0hnpa6ykfasp2hshqdny29dyw6y9dib4rsm379fm7n8iami1rjp1",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "assertthat", "dplyr", "pwalign", "rlang", "rtracklayer", "stringr"]
|
|
},
|
|
"SubCellBarCode": {
|
|
"name": "SubCellBarCode",
|
|
"version": "1.20.0",
|
|
"sha256": "1r4w6mbzfsgf6bd0x5g8chjqji7dll2vjdvzrlbzgdhb710hmil0",
|
|
"depends": ["AnnotationDbi", "Rtsne", "caret", "e1071", "ggplot2", "ggrepel", "gridExtra", "networkD3", "org_Hs_eg_db", "scatterplot3d"]
|
|
},
|
|
"SummarizedExperiment": {
|
|
"name": "SummarizedExperiment",
|
|
"version": "1.34.0",
|
|
"sha256": "02cvgq2vgg0gz1gxkc4vnr9jg4wkj32bl5a1qyv77wnw2b2v5hp0",
|
|
"depends": ["Biobase", "BiocGenerics", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "MatrixGenerics", "S4Arrays", "S4Vectors"]
|
|
},
|
|
"Summix": {
|
|
"name": "Summix",
|
|
"version": "2.10.0",
|
|
"sha256": "01ri56flnhca5bkl2j5mc3siqpwhi0771h742xjwssbk1rmcp5im",
|
|
"depends": ["BEDASSLE", "dplyr", "magrittr", "nloptr", "randomcoloR", "scales", "tibble", "tidyselect", "visNetwork"]
|
|
},
|
|
"SurfR": {
|
|
"name": "SurfR",
|
|
"version": "1.0.0",
|
|
"sha256": "0qbvwjcrxkv0as18af6436fi1i19gbvyj22fgglxmbmckxfwv14b",
|
|
"depends": ["BiocFileCache", "BiocStyle", "DESeq2", "SPsimSeq", "SummarizedExperiment", "TCGAbiolinks", "assertr", "biomaRt", "dplyr", "edgeR", "enrichR", "ggplot2", "ggrepel", "gridExtra", "httr", "knitr", "magrittr", "metaRNASeq", "openxlsx", "rhdf5", "scales", "stringr", "tidyr", "venn"]
|
|
},
|
|
"SwathXtend": {
|
|
"name": "SwathXtend",
|
|
"version": "2.26.0",
|
|
"sha256": "11k6a5m73pj49ahync5773w4wbz5mb27nss531nbqj738lnfidv4",
|
|
"depends": ["VennDiagram", "e1071", "lattice", "openxlsx"]
|
|
},
|
|
"SynExtend": {
|
|
"name": "SynExtend",
|
|
"version": "1.16.0",
|
|
"sha256": "1nikkhwyh61mhjxhrg4f1g402rzm9lc7jbaclcpp6v2rmd9dxqmw",
|
|
"depends": ["Biostrings", "DBI", "DECIPHER", "IRanges", "RSQLite", "S4Vectors"]
|
|
},
|
|
"SynMut": {
|
|
"name": "SynMut",
|
|
"version": "1.20.0",
|
|
"sha256": "075r77ih2k29hl7ccn3v6104fk4spk733ph6jp2zxjimffnj7rj5",
|
|
"depends": ["BiocGenerics", "Biostrings", "seqinr", "stringr"]
|
|
},
|
|
"TADCompare": {
|
|
"name": "TADCompare",
|
|
"version": "1.14.0",
|
|
"sha256": "1k80xwbc3h4994f8j5qr52rn2hk2l5qz1196r1kpn6m47h80fq6c",
|
|
"depends": ["HiCcompare", "Matrix", "PRIMME", "RColorBrewer", "cluster", "cowplot", "dplyr", "ggplot2", "ggpubr", "magrittr", "reshape2", "tidyr"]
|
|
},
|
|
"TAPseq": {
|
|
"name": "TAPseq",
|
|
"version": "1.16.0",
|
|
"sha256": "0nz70a68cn8is0hp8srp7clqwwnr045mpibz4yazskia7lhbm73i",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "dplyr", "tidyr"]
|
|
},
|
|
"TBSignatureProfiler": {
|
|
"name": "TBSignatureProfiler",
|
|
"version": "1.16.0",
|
|
"sha256": "1vjd9dwnr6m867d1ax6kwj4w5qs5y81fzrnnjl6xkl2ch3g48jpk",
|
|
"depends": ["ASSIGN", "BiocParallel", "ComplexHeatmap", "DESeq2", "DT", "GSVA", "RColorBrewer", "ROCit", "S4Vectors", "SummarizedExperiment", "edgeR", "gdata", "ggplot2", "magrittr", "reshape2", "rlang", "singscore"]
|
|
},
|
|
"TCC": {
|
|
"name": "TCC",
|
|
"version": "1.44.0",
|
|
"sha256": "0j9b6q7h3w7kcpwbc3f9aabj8jrh5hwpx8rnd415rq7fakq3ix6p",
|
|
"depends": ["DESeq2", "ROC", "edgeR"]
|
|
},
|
|
"TCGAbiolinks": {
|
|
"name": "TCGAbiolinks",
|
|
"version": "2.32.0",
|
|
"sha256": "1br2dxi5rvl8z5myrnj4dnfh8xgksrqjyy0fsqh3vjspifvis4ih",
|
|
"depends": ["GenomicRanges", "IRanges", "R_utils", "S4Vectors", "SummarizedExperiment", "TCGAbiolinksGUI_data", "XML", "biomaRt", "data_table", "downloader", "dplyr", "ggplot2", "httr", "jsonlite", "knitr", "plyr", "purrr", "readr", "rvest", "stringr", "tibble", "tidyr", "xml2"]
|
|
},
|
|
"TCGAutils": {
|
|
"name": "TCGAutils",
|
|
"version": "1.24.0",
|
|
"sha256": "0fmz1lfpn8ws584q4xlicg897qs36wgr78crw0d9415ci6qqb4r8",
|
|
"depends": ["AnnotationDbi", "BiocBaseUtils", "BiocGenerics", "GenomeInfoDb", "GenomicDataCommons", "GenomicFeatures", "GenomicRanges", "IRanges", "MultiAssayExperiment", "RaggedExperiment", "S4Vectors", "SummarizedExperiment", "rvest", "stringr", "xml2"]
|
|
},
|
|
"TCseq": {
|
|
"name": "TCseq",
|
|
"version": "1.28.0",
|
|
"sha256": "014al1b58rkfy1cqxwf3xgzrbdvqv2x3ac2clqmj1262ygrmiw5v",
|
|
"depends": ["BiocGenerics", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "SummarizedExperiment", "cluster", "e1071", "edgeR", "ggplot2", "locfit", "reshape2"]
|
|
},
|
|
"TDbasedUFE": {
|
|
"name": "TDbasedUFE",
|
|
"version": "1.4.0",
|
|
"sha256": "1q1ljwwkhkqq2pbzm60kkhyqrqixljcw0vqajbpwk68gmc8sxwyz",
|
|
"depends": ["GenomicRanges", "MOFAdata", "rTensor", "readr", "shiny", "tximport", "tximportData"]
|
|
},
|
|
"TDbasedUFEadv": {
|
|
"name": "TDbasedUFEadv",
|
|
"version": "1.4.0",
|
|
"sha256": "1iiil5vn95bsldxigjlyqraivrnwlajkn18y0880qinrbfcwpidz",
|
|
"depends": ["Biobase", "DOSE", "GenomicRanges", "RTCGA", "STRINGdb", "TDbasedUFE", "enrichR", "enrichplot", "hash", "rTensor", "shiny"]
|
|
},
|
|
"TEKRABber": {
|
|
"name": "TEKRABber",
|
|
"version": "1.8.0",
|
|
"sha256": "0ivbj063awdh41ldj6cl68ydx8y4jv8wzwwxr67iwhxdgpcwlwx8",
|
|
"depends": ["DESeq2", "GenomeInfoDb", "Rcpp", "SCBN", "apeglm", "biomaRt", "doParallel", "dplyr", "foreach", "magrittr", "rtracklayer"]
|
|
},
|
|
"TENxIO": {
|
|
"name": "TENxIO",
|
|
"version": "1.6.0",
|
|
"sha256": "1bghch637h2cckkb8czzjnvn4vlh4cjk8izy6079wq8p39zr10fx",
|
|
"depends": ["BiocBaseUtils", "BiocGenerics", "BiocIO", "GenomeInfoDb", "GenomicRanges", "Matrix", "MatrixGenerics", "RCurl", "R_utils", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "readr"]
|
|
},
|
|
"TEQC": {
|
|
"name": "TEQC",
|
|
"version": "4.26.0",
|
|
"sha256": "1cvc4lrnhkr5l5x0cpjmzxj449lmkw337a8gpan73yvj2p0r7axg",
|
|
"depends": ["Biobase", "BiocGenerics", "IRanges", "Rsamtools", "hwriter"]
|
|
},
|
|
"TFARM": {
|
|
"name": "TFARM",
|
|
"version": "1.26.0",
|
|
"sha256": "1l2763lxgda628i6abl2hp5ghxzzw1lk3zmd15aibf8rfl9cghha",
|
|
"depends": ["GenomicRanges", "arules", "fields", "gplots", "stringr"]
|
|
},
|
|
"TFBSTools": {
|
|
"name": "TFBSTools",
|
|
"version": "1.42.0",
|
|
"sha256": "0bmmsgmx7159bdrflykkis0v4z1ixwlnmw1kx0y0kw15lw3cjnsh",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "CNEr", "DBI", "DirichletMultinomial", "GenomeInfoDb", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "TFMPvalue", "XML", "XVector", "caTools", "gtools", "pwalign", "rtracklayer", "seqLogo"]
|
|
},
|
|
"TFEA_ChIP": {
|
|
"name": "TFEA.ChIP",
|
|
"version": "1.24.0",
|
|
"sha256": "0xn176h7dfb3sbg913xzwj3c2ymzf7i0y2an19zjvynk49xq12ph",
|
|
"depends": ["GenomicFeatures", "GenomicRanges", "IRanges", "R_utils", "biomaRt", "dplyr", "org_Hs_eg_db"]
|
|
},
|
|
"TFHAZ": {
|
|
"name": "TFHAZ",
|
|
"version": "1.26.0",
|
|
"sha256": "1d1b1ylrqkskxkmyfjh1334kdmn0j6h5wdwcafaly1rkr4kihpl0",
|
|
"depends": ["GenomicRanges", "IRanges", "ORFik", "S4Vectors"]
|
|
},
|
|
"TFutils": {
|
|
"name": "TFutils",
|
|
"version": "1.24.0",
|
|
"sha256": "0n0szdh09zr7866pl6y5zps6izlylhh1n20zkv7xsaq91hsw9g52",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "DT", "GSEABase", "Rsamtools", "dplyr", "httr", "magrittr", "miniUI", "org_Hs_eg_db", "readxl", "rjson", "shiny"]
|
|
},
|
|
"TIN": {
|
|
"name": "TIN",
|
|
"version": "1.36.0",
|
|
"sha256": "06dmy5yjskaisibbr4qlw7bdbwj8v1b09c28v4wzd86a2554hywp",
|
|
"depends": ["WGCNA", "aroma_affymetrix", "data_table", "impute", "squash", "stringr"]
|
|
},
|
|
"TMixClust": {
|
|
"name": "TMixClust",
|
|
"version": "1.26.0",
|
|
"sha256": "0p88kdl9v2q6wabr31v26q0612qcw1q5s71zbanamx0s2xsvyjgh",
|
|
"depends": ["Biobase", "BiocParallel", "SPEM", "cluster", "flexclust", "gss", "mvtnorm", "zoo"]
|
|
},
|
|
"TOAST": {
|
|
"name": "TOAST",
|
|
"version": "1.18.0",
|
|
"sha256": "0srjx9z59a65nhrxbzxzxnkyn28zskc6z4p8drihq1lhw6mvdp4r",
|
|
"depends": ["EpiDISH", "GGally", "SummarizedExperiment", "corpcor", "doParallel", "ggplot2", "limma", "nnls", "quadprog", "tidyr"]
|
|
},
|
|
"TOP": {
|
|
"name": "TOP",
|
|
"version": "1.4.0",
|
|
"sha256": "1lj7a9kry3ca2iz231si0vfxbnib5wqj5x4ldvb1l1wfjhdf4x2p",
|
|
"depends": ["ClassifyR", "Hmisc", "assertthat", "caret", "directPA", "doParallel", "dplyr", "ggnewscale", "ggplot2", "ggraph", "ggrepel", "ggthemes", "glmnet", "igraph", "latex2exp", "limma", "magrittr", "pROC", "plotly", "purrr", "reshape2", "statmod", "stringr", "survival", "tibble", "tidygraph", "tidyr"]
|
|
},
|
|
"TPP": {
|
|
"name": "TPP",
|
|
"version": "3.32.0",
|
|
"sha256": "1pfnk9zfd7d8ysiiawj1xbcq7vck5xs25jy2rz94mpwvgpxkvkif",
|
|
"depends": ["Biobase", "MASS", "RColorBrewer", "RCurl", "VGAM", "VennDiagram", "biobroom", "broom", "data_table", "doParallel", "dplyr", "foreach", "futile_logger", "ggplot2", "gridExtra", "knitr", "limma", "magrittr", "mefa", "nls2", "openxlsx", "plyr", "purrr", "reshape2", "rmarkdown", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"TPP2D": {
|
|
"name": "TPP2D",
|
|
"version": "1.20.0",
|
|
"sha256": "1r9fgxd6jx0py4727yzcn73hr3x7rjxmi5yli57wyd07hk0p3w0y",
|
|
"depends": ["BiocParallel", "MASS", "RCurl", "doParallel", "dplyr", "foreach", "ggplot2", "limma", "openxlsx", "stringr", "tidyr"]
|
|
},
|
|
"TREG": {
|
|
"name": "TREG",
|
|
"version": "1.8.0",
|
|
"sha256": "0yf2fmswkl01ymr1zy23d2xg8j8vb5q28grqb0r83b11rkxhfhqm",
|
|
"depends": ["Matrix", "SummarizedExperiment", "purrr", "rafalib"]
|
|
},
|
|
"TRESS": {
|
|
"name": "TRESS",
|
|
"version": "1.10.0",
|
|
"sha256": "1dv6xr625gr7jf7rk7fxhfyxgkrkc71mdc3fvzi98r23sk1h62xq",
|
|
"depends": ["AnnotationDbi", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "Rsamtools", "S4Vectors", "matrixStats", "rtracklayer"]
|
|
},
|
|
"TRONCO": {
|
|
"name": "TRONCO",
|
|
"version": "2.36.0",
|
|
"sha256": "1dliwyjsvwr6cjf4cp3w7h46ac4fzd7hnfw4nsb330ajdr38ri0y",
|
|
"depends": ["RColorBrewer", "R_matlab", "Rgraphviz", "bnlearn", "circlize", "doParallel", "foreach", "gridExtra", "gtable", "gtools", "igraph", "iterators", "scales", "xtable"]
|
|
},
|
|
"TSAR": {
|
|
"name": "TSAR",
|
|
"version": "1.2.0",
|
|
"sha256": "1bnyrrc92m4v35ar640pnm1fb3cq3hlp8lpwicrzbv8dvyzsxw43",
|
|
"depends": ["dplyr", "ggplot2", "ggpubr", "jsonlite", "magrittr", "mgcv", "minpack_lm", "openxlsx", "plotly", "readxl", "rhandsontable", "shiny", "shinyWidgets", "shinyjs", "stringr", "tidyr"]
|
|
},
|
|
"TSCAN": {
|
|
"name": "TSCAN",
|
|
"version": "1.42.0",
|
|
"sha256": "1s80n1yjmshy59ls607hp8hpq56hllbh0a4mbgvxd8bqh4njfc0j",
|
|
"depends": ["DelayedArray", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TrajectoryUtils", "combinat", "fastICA", "ggplot2", "gplots", "igraph", "mclust", "mgcv", "plyr", "shiny"]
|
|
},
|
|
"TTMap": {
|
|
"name": "TTMap",
|
|
"version": "1.26.0",
|
|
"sha256": "0988hy3hr3cf7snj7k7d0gl0w4qg7ssk53pmvvng171b82m6szqw",
|
|
"depends": ["Biobase", "SummarizedExperiment", "colorRamps", "rgl"]
|
|
},
|
|
"TVTB": {
|
|
"name": "TVTB",
|
|
"version": "1.30.1",
|
|
"sha256": "1dacdp9rkh47mc1bpz1y0xhrncdc3hwgvi2436wpahra5adcg1mh",
|
|
"depends": ["AnnotationFilter", "BiocGenerics", "BiocParallel", "Biostrings", "GGally", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "ensembldb", "ggplot2", "limma", "reshape2"]
|
|
},
|
|
"TargetDecoy": {
|
|
"name": "TargetDecoy",
|
|
"version": "1.10.0",
|
|
"sha256": "1gys5v5sb3ypip82q9gw21dg5whllqdhh8i9zy48qrg4mh2jby1s",
|
|
"depends": ["ggplot2", "ggpubr", "miniUI", "mzID", "mzR", "shiny"]
|
|
},
|
|
"TargetScore": {
|
|
"name": "TargetScore",
|
|
"version": "1.42.0",
|
|
"sha256": "124fy7q7y37jxasvnlk8sfkw307qs1wyafxvs3fmb3f3impffxsz",
|
|
"depends": ["Matrix", "pracma"]
|
|
},
|
|
"TargetSearch": {
|
|
"name": "TargetSearch",
|
|
"version": "2.6.2",
|
|
"sha256": "0l3prcqi80g9n823gm2bnpn30r95dbmg5yfvdqwsvd465kyah3hz",
|
|
"depends": ["assertthat", "ncdf4"]
|
|
},
|
|
"TileDBArray": {
|
|
"name": "TileDBArray",
|
|
"version": "1.14.0",
|
|
"sha256": "1hgwcxffg50nfjb3bpl00h7vhmfs1x15ly7sd0lpcnamk7f9c003",
|
|
"depends": ["DelayedArray", "Rcpp", "S4Vectors", "tiledb"]
|
|
},
|
|
"TissueEnrich": {
|
|
"name": "TissueEnrich",
|
|
"version": "1.24.1",
|
|
"sha256": "02amlvaf5v30x2swxhi4na4c623v00gb3q1bvlcqias9gaaizzim",
|
|
"depends": ["GSEABase", "SummarizedExperiment", "dplyr", "ggplot2", "tidyr"]
|
|
},
|
|
"TitanCNA": {
|
|
"name": "TitanCNA",
|
|
"version": "1.42.0",
|
|
"sha256": "18ihvqn07g677r3facf43m69bnjx4i0s6w41h4mdn82hal0pfsx0",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "VariantAnnotation", "data_table", "dplyr", "foreach"]
|
|
},
|
|
"ToxicoGx": {
|
|
"name": "ToxicoGx",
|
|
"version": "2.8.0",
|
|
"sha256": "0b34d5js6w50bm5cl5v8ppfc0lljsbm1zbrqlc5qifc8lcyliq8a",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "CoreGx", "S4Vectors", "SummarizedExperiment", "assertthat", "caTools", "data_table", "downloader", "dplyr", "ggplot2", "jsonlite", "limma", "magrittr", "reshape2", "scales", "tibble", "tidyr"]
|
|
},
|
|
"TrajectoryGeometry": {
|
|
"name": "TrajectoryGeometry",
|
|
"version": "1.12.0",
|
|
"sha256": "102mhg46s6s95j98wsy0r6327riqhb5jcdzmksiwphsdpsp9c16s",
|
|
"depends": ["ggplot2", "pracma", "rgl"]
|
|
},
|
|
"TrajectoryUtils": {
|
|
"name": "TrajectoryUtils",
|
|
"version": "1.12.0",
|
|
"sha256": "15q1mq48nclf2lqc2v769q79frrbm2l65d54vcqg06b861q2wq9h",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "igraph"]
|
|
},
|
|
"TransView": {
|
|
"name": "TransView",
|
|
"version": "1.48.0",
|
|
"sha256": "1bk4h1sh2xdm67mkzsg2l0kgg88m5z39hxmshh0j2bybyyy07jkp",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "Rhtslib", "S4Vectors", "gplots", "zlibbioc"]
|
|
},
|
|
"TreeAndLeaf": {
|
|
"name": "TreeAndLeaf",
|
|
"version": "1.16.0",
|
|
"sha256": "0fm1v6w73vs99smqk8i8b85pr38zlbpgyby6qh3s0xslxbyk6b32",
|
|
"depends": ["RedeR", "ape", "igraph"]
|
|
},
|
|
"TreeSummarizedExperiment": {
|
|
"name": "TreeSummarizedExperiment",
|
|
"version": "2.12.0",
|
|
"sha256": "0ygzw9nba5pxgrbib8sm7qwhzzm8m038banb0z7n42vkb1cb3d5i",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "IRanges", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ape", "dplyr", "rlang", "treeio"]
|
|
},
|
|
"Trendy": {
|
|
"name": "Trendy",
|
|
"version": "1.26.0",
|
|
"sha256": "172hcq9zxah3m55j3kzpg5hvr06d656j1s8j3jcvksc0f3l9r990",
|
|
"depends": ["BiocParallel", "DT", "S4Vectors", "SummarizedExperiment", "gplots", "magrittr", "segmented", "shiny", "shinyFiles"]
|
|
},
|
|
"TurboNorm": {
|
|
"name": "TurboNorm",
|
|
"version": "1.52.0",
|
|
"sha256": "13096cp69y6vkn0gm13ssyzgp7fhvqggnipigdfdrpmvf8gcl881",
|
|
"depends": ["affy", "convert", "lattice", "limma", "marray"]
|
|
},
|
|
"TypeInfo": {
|
|
"name": "TypeInfo",
|
|
"version": "1.70.0",
|
|
"sha256": "0sx9z1wnlh6sj8gww0mxwavggkgj4zk23z8509pbch36acr6fgls",
|
|
"depends": []
|
|
},
|
|
"UCSC_utils": {
|
|
"name": "UCSC.utils",
|
|
"version": "1.0.0",
|
|
"sha256": "0w9f5xd6ryniapbpcrpczn8wimph2154w45cvdgqfa3dv5qy379l",
|
|
"depends": ["S4Vectors", "httr", "jsonlite"]
|
|
},
|
|
"UCell": {
|
|
"name": "UCell",
|
|
"version": "2.8.0",
|
|
"sha256": "09r64rrydwgvvvq8f5vzvn7dsh24l9sa1if21wcimrl28ci1g1mv",
|
|
"depends": ["BiocNeighbors", "BiocParallel", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "data_table"]
|
|
},
|
|
"UMI4Cats": {
|
|
"name": "UMI4Cats",
|
|
"version": "1.14.0",
|
|
"sha256": "1cf2jsmhsmw6i381wxnb0zsyhkr2mjlxlzpjnlfxyf4kr6n8k797",
|
|
"depends": ["BSgenome", "BiocFileCache", "BiocGenerics", "Biostrings", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "R_utils", "Rbowtie2", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "annotate", "cowplot", "dplyr", "fda", "ggplot2", "magick", "magrittr", "org_Hs_eg_db", "rappdirs", "regioneR", "reshape2", "rlang", "scales", "stringr", "zoo"]
|
|
},
|
|
"UNDO": {
|
|
"name": "UNDO",
|
|
"version": "1.46.0",
|
|
"sha256": "1h7bri3hkl99gll5vpamgp7x60afdmq8h1mqw4plr9ypxv2kljpj",
|
|
"depends": ["Biobase", "BiocGenerics", "MASS", "boot", "nnls"]
|
|
},
|
|
"UPDhmm": {
|
|
"name": "UPDhmm",
|
|
"version": "1.0.0",
|
|
"sha256": "0qa6d3c2gvhfq5shgdpsgzrghx8jwpvx6an8rvidl5p7nzhhdjgi",
|
|
"depends": ["GenomicRanges", "HMM", "IRanges", "S4Vectors", "VariantAnnotation"]
|
|
},
|
|
"Ularcirc": {
|
|
"name": "Ularcirc",
|
|
"version": "1.22.0",
|
|
"sha256": "0qzkvwg3gd9v9cqf3hmmyh4gzdqs5m6nxjjbnhqsdp6wshccdv4p",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BSgenome", "BiocGenerics", "Biostrings", "DT", "GenomeInfoDb", "GenomeInfoDbData", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Organism_dplyr", "R_utils", "S4Vectors", "data_table", "ggplot2", "ggrepel", "gsubfn", "mirbase_db", "moments", "plotgardener", "shiny", "shinyFiles", "shinydashboard", "shinyjs", "yaml"]
|
|
},
|
|
"UniProt_ws": {
|
|
"name": "UniProt.ws",
|
|
"version": "2.44.0",
|
|
"sha256": "1vcbphksaanggig1yfmrihhw1a4fmy1cl7yq5w3z3lb6zik5rgx8",
|
|
"depends": ["AnnotationDbi", "BiocBaseUtils", "BiocFileCache", "BiocGenerics", "RSQLite", "httpcache", "httr", "jsonlite", "progress", "rjsoncons"]
|
|
},
|
|
"Uniquorn": {
|
|
"name": "Uniquorn",
|
|
"version": "2.24.0",
|
|
"sha256": "1f2hp395gfxnrf9mg8kqd6cjr9b651gzrj2bcfv5hx2qh0mh1z75",
|
|
"depends": ["GenomicRanges", "IRanges", "R_utils", "VariantAnnotation", "WriteXLS", "data_table", "doParallel", "foreach", "stringr"]
|
|
},
|
|
"VAExprs": {
|
|
"name": "VAExprs",
|
|
"version": "1.10.0",
|
|
"sha256": "0mcdh0xsqjpc3nj1xfps3y2r62ayh8ykgpyblqxp2n52f781hcbx",
|
|
"depends": ["CatEncoders", "DeepPINCS", "DiagrammeR", "SingleCellExperiment", "SummarizedExperiment", "keras", "mclust", "purrr", "scater", "tensorflow"]
|
|
},
|
|
"VCFArray": {
|
|
"name": "VCFArray",
|
|
"version": "1.20.0",
|
|
"sha256": "07z0zds9pqh7wi5zl8wsyxqrks5j182j0005c225y8n4qgwbmqk0",
|
|
"depends": ["BiocGenerics", "DelayedArray", "GenomicFiles", "GenomicRanges", "Rsamtools", "S4Vectors", "VariantAnnotation"]
|
|
},
|
|
"VDJdive": {
|
|
"name": "VDJdive",
|
|
"version": "1.6.0",
|
|
"sha256": "1ml175pk27msai86pnm8jyy8li7f5rkkqqfw1a9m9d850n7ry37h",
|
|
"depends": ["BiocParallel", "IRanges", "Matrix", "RColorBrewer", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cowplot", "ggplot2", "gridExtra"]
|
|
},
|
|
"VERSO": {
|
|
"name": "VERSO",
|
|
"version": "1.14.0",
|
|
"sha256": "1yixhbwa2wi3rddmyd37b9nznw4c7s36wz0mnzwqvx1n9w0zpdk3",
|
|
"depends": ["Rfast", "ape", "data_tree"]
|
|
},
|
|
"VaSP": {
|
|
"name": "VaSP",
|
|
"version": "1.16.0",
|
|
"sha256": "1gh0mgci2jadv3g0wc3li6d9rlaaqybdx148gkzwnjf0bmhqxz34",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ballgown", "cluster", "matrixStats"]
|
|
},
|
|
"VanillaICE": {
|
|
"name": "VanillaICE",
|
|
"version": "1.66.0",
|
|
"sha256": "0a9yzlwnyq9840w25gqsc0ijydifq6kbr7z9bzq74s7zqxzxkkqv",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg18", "Biobase", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "MatrixGenerics", "S4Vectors", "SummarizedExperiment", "crlmm", "data_table", "foreach", "lattice", "matrixStats", "oligoClasses"]
|
|
},
|
|
"VarCon": {
|
|
"name": "VarCon",
|
|
"version": "1.12.0",
|
|
"sha256": "1ns5sxb2qrh0y6hdg6qn6s1hl4d64cvsipl6mcwqiyka9lrlmlhy",
|
|
"depends": ["BSgenome", "Biostrings", "GenomicRanges", "IRanges", "ggplot2", "shiny", "shinyFiles", "shinycssloaders"]
|
|
},
|
|
"VariantAnnotation": {
|
|
"name": "VariantAnnotation",
|
|
"version": "1.50.0",
|
|
"sha256": "0slvlhm65hkjspzlzs3gi04a6mlfwvda314z1nmzpdi3y5111fg7",
|
|
"depends": ["AnnotationDbi", "BSgenome", "Biobase", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "MatrixGenerics", "Rhtslib", "Rsamtools", "S4Vectors", "SummarizedExperiment", "XVector", "rtracklayer", "zlibbioc"]
|
|
},
|
|
"VariantExperiment": {
|
|
"name": "VariantExperiment",
|
|
"version": "1.18.1",
|
|
"sha256": "0wxhfd92cfh9rg99jrw9rg7vfqk8lf2ylkpki2jf59hlx8zzs2z9",
|
|
"depends": ["Biostrings", "DelayedArray", "DelayedDataFrame", "GDSArray", "GenomicRanges", "IRanges", "S4Vectors", "SNPRelate", "SeqArray", "SummarizedExperiment", "gdsfmt"]
|
|
},
|
|
"VariantFiltering": {
|
|
"name": "VariantFiltering",
|
|
"version": "1.40.0",
|
|
"sha256": "14kxlzgy71s8h34galx93q8kalspr1m23brssbr3wha0hxb0ghgd",
|
|
"depends": ["AnnotationDbi", "BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DT", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "GenomicScores", "Gviz", "IRanges", "RBGL", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "XVector", "graph", "shiny", "shinyTree", "shinyjs", "shinythemes"]
|
|
},
|
|
"VariantTools": {
|
|
"name": "VariantTools",
|
|
"version": "1.46.0",
|
|
"sha256": "1idil9vkd5risx9ahkagdacnj2g2a11gzsd7wmhg5gjmr77r53ww",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "Rsamtools", "S4Vectors", "VariantAnnotation", "rtracklayer"]
|
|
},
|
|
"VegaMC": {
|
|
"name": "VegaMC",
|
|
"version": "3.42.0",
|
|
"sha256": "0jswscxb78g6j978361g4cmwlzlwfkyfx6i3p9fpny464i8gsfji",
|
|
"depends": ["Biobase", "biomaRt"]
|
|
},
|
|
"VennDetail": {
|
|
"name": "VennDetail",
|
|
"version": "1.20.0",
|
|
"sha256": "0987ljk70lsjhwzk3dxslg80ng8cnjhh02zr2raphyliys0msvxz",
|
|
"depends": ["UpSetR", "VennDiagram", "dplyr", "futile_logger", "ggplot2", "magrittr", "purrr", "tibble"]
|
|
},
|
|
"ViSEAGO": {
|
|
"name": "ViSEAGO",
|
|
"version": "1.18.0",
|
|
"sha256": "06cqx88vndmgxb7vhn7w0kwkxrsn8hy3a3mz591pj48f3z0q9w16",
|
|
"depends": ["AnnotationDbi", "AnnotationForge", "DT", "DiagrammeR", "GOSemSim", "GO_db", "RColorBrewer", "R_utils", "UpSetR", "biomaRt", "data_table", "dendextend", "dynamicTreeCut", "fgsea", "ggplot2", "heatmaply", "htmlwidgets", "igraph", "plotly", "processx", "scales", "topGO"]
|
|
},
|
|
"VisiumIO": {
|
|
"name": "VisiumIO",
|
|
"version": "1.0.0",
|
|
"sha256": "01yvahz20fkvf2mj0zjl04w0dzs5jf4snlmry8d5a9y3smkspqyv",
|
|
"depends": ["BiocBaseUtils", "BiocGenerics", "BiocIO", "S4Vectors", "SpatialExperiment", "SummarizedExperiment", "TENxIO", "jsonlite"]
|
|
},
|
|
"Voyager": {
|
|
"name": "Voyager",
|
|
"version": "1.6.0",
|
|
"sha256": "0nvcp1wcrisiljj4w61ykz82a2l8c9vx8ixh209v2ih004wyy1y1",
|
|
"depends": ["BiocParallel", "Matrix", "RSpectra", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SpatialFeatureExperiment", "SummarizedExperiment", "bluster", "ggnewscale", "ggplot2", "lifecycle", "matrixStats", "memuse", "patchwork", "rlang", "scales", "scico", "sf", "spdep", "terra"]
|
|
},
|
|
"VplotR": {
|
|
"name": "VplotR",
|
|
"version": "1.14.0",
|
|
"sha256": "1cg5ifl2k2134k5lhxfvsr4xm31w0bdg0rzy8yb5k77gldilb0il",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "cowplot", "ggplot2", "magrittr", "reshape2", "zoo"]
|
|
},
|
|
"Wrench": {
|
|
"name": "Wrench",
|
|
"version": "1.22.0",
|
|
"sha256": "1nwbqagpcs38c66r1arbby76if6pafa4snd6zbp18y71jj8rgvl7",
|
|
"depends": ["limma", "locfit", "matrixStats"]
|
|
},
|
|
"XDE": {
|
|
"name": "XDE",
|
|
"version": "2.50.0",
|
|
"sha256": "1f0aahpyrmkg5h3v6v5qw35gsjskh6dh16bgygkssa1qcafmqfv1",
|
|
"depends": ["Biobase", "BiocGenerics", "GeneMeta", "RColorBrewer", "genefilter", "gtools", "mvtnorm", "siggenes"]
|
|
},
|
|
"XINA": {
|
|
"name": "XINA",
|
|
"version": "1.22.0",
|
|
"sha256": "177yzqmkf3f2xgfrz1zpcw554yzm4njd2chhmvxi2vvijvnrgdf3",
|
|
"depends": ["STRINGdb", "alluvial", "ggplot2", "gridExtra", "igraph", "mclust", "plyr"]
|
|
},
|
|
"XNAString": {
|
|
"name": "XNAString",
|
|
"version": "1.12.0",
|
|
"sha256": "0dgdaq8w7q32scdxragi40x7mkgpvvyzs2bwfb6c2yb4n2j40imi",
|
|
"depends": ["BSgenome", "Biostrings", "GenomicRanges", "IRanges", "Rcpp", "S4Vectors", "data_table", "formattable", "future_apply", "pwalign", "stringi", "stringr"]
|
|
},
|
|
"XVector": {
|
|
"name": "XVector",
|
|
"version": "0.44.0",
|
|
"sha256": "0fxv97m79w0ph4wbgp9drz6ahvnnzpv08grb11lr6a7laqq5x8s2",
|
|
"depends": ["BiocGenerics", "IRanges", "S4Vectors", "zlibbioc"]
|
|
},
|
|
"Xeva": {
|
|
"name": "Xeva",
|
|
"version": "1.20.0",
|
|
"sha256": "1n6bxj5gshr2rzcxw6dc5wcmj1ajssrqzp7a7b6rlnszk2h4vgys",
|
|
"depends": ["BBmisc", "Biobase", "ComplexHeatmap", "PharmacoGx", "Rmisc", "doParallel", "downloader", "ggplot2", "nlme", "scales"]
|
|
},
|
|
"YAPSA": {
|
|
"name": "YAPSA",
|
|
"version": "1.30.0",
|
|
"sha256": "0908hyji07br1i1zms21a99m3mvi707xj8zbd1w64gzackghabhl",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "Biostrings", "ComplexHeatmap", "GenomeInfoDb", "GenomicRanges", "GetoptLong", "KEGGREST", "PMCMRplus", "SomaticSignatures", "VariantAnnotation", "circlize", "corrplot", "dendextend", "doParallel", "dplyr", "ggbeeswarm", "ggplot2", "gridExtra", "gtrellis", "limSolve", "magrittr", "pracma", "reshape2"]
|
|
},
|
|
"ZygosityPredictor": {
|
|
"name": "ZygosityPredictor",
|
|
"version": "1.4.0",
|
|
"sha256": "03yxnrbkfzc1dqa8zin8gwi9iryw3ir2k5s80dzxclr1651zh5xd",
|
|
"depends": ["DelayedArray", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "VariantAnnotation", "dplyr", "igraph", "knitr", "magrittr", "purrr", "readr", "rlang", "stringr", "tibble"]
|
|
},
|
|
"a4": {
|
|
"name": "a4",
|
|
"version": "1.52.0",
|
|
"sha256": "1wzqpvz49wkbvqij48c3l6vqfvflgic8gzvjdigb1c6mr96l6vgg",
|
|
"depends": ["a4Base", "a4Classif", "a4Core", "a4Preproc", "a4Reporting"]
|
|
},
|
|
"a4Base": {
|
|
"name": "a4Base",
|
|
"version": "1.52.0",
|
|
"sha256": "19vapjmyd3ly3s2gqa2xfg99gyc6n6lv3c6rpi0ch4hzb7wiinvm",
|
|
"depends": ["Biobase", "a4Core", "a4Preproc", "annaffy", "genefilter", "glmnet", "gplots", "limma", "mpm", "multtest"]
|
|
},
|
|
"a4Classif": {
|
|
"name": "a4Classif",
|
|
"version": "1.52.0",
|
|
"sha256": "15jcd66brvbjz0p3z2b43ac5k81s3vmcbkwmga0f7f5v53fp8qvw",
|
|
"depends": ["Biobase", "ROCR", "a4Core", "a4Preproc", "glmnet", "pamr", "varSelRF"]
|
|
},
|
|
"a4Core": {
|
|
"name": "a4Core",
|
|
"version": "1.52.0",
|
|
"sha256": "1jn2ikzijd282jl96i9hcvahkc6l2vsd79dxqiz7kwaqcp7hs5z9",
|
|
"depends": ["Biobase", "glmnet"]
|
|
},
|
|
"a4Preproc": {
|
|
"name": "a4Preproc",
|
|
"version": "1.52.0",
|
|
"sha256": "1yphs36pk2y4qajq24y443yzb2f55b08nl81ylpf65mvxlxd23w2",
|
|
"depends": ["Biobase", "BiocGenerics"]
|
|
},
|
|
"a4Reporting": {
|
|
"name": "a4Reporting",
|
|
"version": "1.52.0",
|
|
"sha256": "08zlg74qryqm238mld876v15a6c71brkz2y1gnbj0rnl1l9f9rbh",
|
|
"depends": ["xtable"]
|
|
},
|
|
"aCGH": {
|
|
"name": "aCGH",
|
|
"version": "1.82.0",
|
|
"sha256": "00dcx6kcqq5xcdy7rqgi51cvc20dsgrrki8aicbj1icx0m6601wa",
|
|
"depends": ["Biobase", "cluster", "multtest", "survival"]
|
|
},
|
|
"abseqR": {
|
|
"name": "abseqR",
|
|
"version": "1.22.0",
|
|
"sha256": "0aj3kh4c8zk60n6yyh2jblbrvv77071r96m0mrcslqm71dwg9402",
|
|
"depends": ["BiocParallel", "BiocStyle", "RColorBrewer", "VennDiagram", "circlize", "flexdashboard", "ggcorrplot", "ggdendro", "ggplot2", "gridExtra", "knitr", "plotly", "plyr", "png", "reshape2", "rmarkdown", "stringr", "vegan"]
|
|
},
|
|
"acde": {
|
|
"name": "acde",
|
|
"version": "1.34.0",
|
|
"sha256": "1h3drjxdmd837hc7l1xk6b4ha39i7bqkb8862h4h6s5rfa7dcc50",
|
|
"depends": ["boot"]
|
|
},
|
|
"adSplit": {
|
|
"name": "adSplit",
|
|
"version": "1.74.0",
|
|
"sha256": "13rrkb0vxkknvqhb8pgx8d13sxzy3w0wbkhhj5lrlc1kb1yqcfbh",
|
|
"depends": ["AnnotationDbi", "Biobase", "GO_db", "KEGGREST", "cluster", "multtest"]
|
|
},
|
|
"adductomicsR": {
|
|
"name": "adductomicsR",
|
|
"version": "1.20.0",
|
|
"sha256": "0800jbfm488i6ccz48k49gpxr9sf9104cxcghgy9c4lzm5d3wfbm",
|
|
"depends": ["AnnotationHub", "DT", "ExperimentHub", "OrgMassSpecR", "RcppEigen", "adductData", "ade4", "bootstrap", "data_table", "doSNOW", "dplyr", "fastcluster", "foreach", "fpc", "mzR", "pastecs", "pracma", "reshape2", "rvest", "smoother", "zoo"]
|
|
},
|
|
"adverSCarial": {
|
|
"name": "adverSCarial",
|
|
"version": "1.2.0",
|
|
"sha256": "1c8anqpxdrkc33pfm1phqjsb8kjdrfqxh93x8n2mpsywqg8q27pb",
|
|
"depends": ["DelayedArray", "S4Vectors", "gtools"]
|
|
},
|
|
"affxparser": {
|
|
"name": "affxparser",
|
|
"version": "1.76.0",
|
|
"sha256": "0qqc2sq331g2ml390nhjkrnldp6bi7r6xyz7rw77hnr3qpcrhqk2",
|
|
"depends": []
|
|
},
|
|
"affy": {
|
|
"name": "affy",
|
|
"version": "1.82.0",
|
|
"sha256": "19z22c1yd3rkwk7dp8q8xv16n0qv92iz00vzid3pniy7zr80cxxy",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocManager", "affyio", "preprocessCore", "zlibbioc"]
|
|
},
|
|
"affyContam": {
|
|
"name": "affyContam",
|
|
"version": "1.62.0",
|
|
"sha256": "0r4pqda9pv60b867c6yi328687kyxjglk5jmcal6xnlr75nf4w0y",
|
|
"depends": ["Biobase", "affy", "affydata"]
|
|
},
|
|
"affyILM": {
|
|
"name": "affyILM",
|
|
"version": "1.56.0",
|
|
"sha256": "185kdrnvcp2jw0k71q0v4yk7583gwgi31h0n281x25hirixf6rm3",
|
|
"depends": ["Biobase", "affxparser", "affy", "gcrma"]
|
|
},
|
|
"affyPLM": {
|
|
"name": "affyPLM",
|
|
"version": "1.80.0",
|
|
"sha256": "1khknl7k45amyw58mcgw7kl511llyddw31qzwqc2l5c4j3bwnpz5",
|
|
"depends": ["Biobase", "BiocGenerics", "affy", "gcrma", "preprocessCore", "zlibbioc"]
|
|
},
|
|
"affycomp": {
|
|
"name": "affycomp",
|
|
"version": "1.80.0",
|
|
"sha256": "02n2v1iwkhmilv1bjfza2yrqj7rsr8v46bghajcb8wdyyaj759ib",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"affycoretools": {
|
|
"name": "affycoretools",
|
|
"version": "1.76.0",
|
|
"sha256": "0w138n3f68ndr0innk981vf8p5wb729m31p0d3f9qp08hmv58jfw",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "GOstats", "Glimma", "RSQLite", "ReportingTools", "S4Vectors", "affy", "edgeR", "gcrma", "ggplot2", "gplots", "hwriter", "lattice", "limma", "oligoClasses", "xtable"]
|
|
},
|
|
"affyio": {
|
|
"name": "affyio",
|
|
"version": "1.74.0",
|
|
"sha256": "156sijj9zy01p038m7yw58h1bw1ii0kd5q9kv3krh6bs67c3dv8h",
|
|
"depends": ["zlibbioc"]
|
|
},
|
|
"affylmGUI": {
|
|
"name": "affylmGUI",
|
|
"version": "1.78.0",
|
|
"sha256": "1qilkr3dcl6driah24kgz7lrzamq08qp2z03inm2m4r5yx8811wc",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocManager", "R2HTML", "affy", "affyPLM", "affyio", "gcrma", "limma", "tkrplot", "xtable"]
|
|
},
|
|
"aggregateBioVar": {
|
|
"name": "aggregateBioVar",
|
|
"version": "1.14.0",
|
|
"sha256": "0qag99chj7n7l0wbb8ar0f58xs6883rgddkgj7jnrrlj3acrm12v",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "rlang", "tibble"]
|
|
},
|
|
"agilp": {
|
|
"name": "agilp",
|
|
"version": "3.36.0",
|
|
"sha256": "1mfi4xvx6ywkr7b7ma9ip6q2nsjvkri8qx48qyr98yyik7gg28d5",
|
|
"depends": []
|
|
},
|
|
"airpart": {
|
|
"name": "airpart",
|
|
"version": "1.12.0",
|
|
"sha256": "05l5rgjfjln3kip72wj4ll4cgak9yz60xg6dgxxj690pxs1pw7bg",
|
|
"depends": ["ComplexHeatmap", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "apeglm", "clue", "dplyr", "dynamicTreeCut", "emdbook", "forestplot", "ggplot2", "lpSolve", "matrixStats", "mclust", "pbapply", "plyr", "rlang", "scater", "smurf"]
|
|
},
|
|
"alabaster": {
|
|
"name": "alabaster",
|
|
"version": "1.4.0",
|
|
"sha256": "0c8ryjn4a4py5439vlk23rskf96xc77blj51c6g6m9j812fsby3l",
|
|
"depends": ["alabaster_base", "alabaster_bumpy", "alabaster_mae", "alabaster_matrix", "alabaster_ranges", "alabaster_sce", "alabaster_se", "alabaster_spatial", "alabaster_string", "alabaster_vcf"]
|
|
},
|
|
"alabaster_base": {
|
|
"name": "alabaster.base",
|
|
"version": "1.4.2",
|
|
"sha256": "1yf4j6dwva1d16fb8ss5hrpmj71azwjk9aqpad9wpnfapaldjzhb",
|
|
"depends": ["Rcpp", "Rhdf5lib", "S4Vectors", "alabaster_schemas", "jsonlite", "jsonvalidate", "rhdf5"]
|
|
},
|
|
"alabaster_bumpy": {
|
|
"name": "alabaster.bumpy",
|
|
"version": "1.4.0",
|
|
"sha256": "16q433asljnnx04b7q2a4ajhbsrzrqa35m6mcx9apg6q24iw869x",
|
|
"depends": ["BiocGenerics", "BumpyMatrix", "IRanges", "Matrix", "S4Vectors", "alabaster_base", "rhdf5"]
|
|
},
|
|
"alabaster_files": {
|
|
"name": "alabaster.files",
|
|
"version": "1.2.0",
|
|
"sha256": "0mib4wix9ddgvhgff05gq2ijy6kyh884nv0j40rxzfkxqhp77gim",
|
|
"depends": ["BiocGenerics", "Rsamtools", "S4Vectors", "alabaster_base"]
|
|
},
|
|
"alabaster_mae": {
|
|
"name": "alabaster.mae",
|
|
"version": "1.4.0",
|
|
"sha256": "07w4q6dm4asrcdqynhdlxyaaf29s3ca8ij8iblwjnpgp9p5pbj6v",
|
|
"depends": ["MultiAssayExperiment", "S4Vectors", "alabaster_base", "alabaster_se", "jsonlite", "rhdf5"]
|
|
},
|
|
"alabaster_matrix": {
|
|
"name": "alabaster.matrix",
|
|
"version": "1.4.2",
|
|
"sha256": "1b32qs2baq9s492a332vh1hpyxq62z16xj2w17m8wh8a4mcabry8",
|
|
"depends": ["BiocGenerics", "DelayedArray", "HDF5Array", "Matrix", "Rcpp", "S4Arrays", "S4Vectors", "SparseArray", "alabaster_base", "rhdf5"]
|
|
},
|
|
"alabaster_ranges": {
|
|
"name": "alabaster.ranges",
|
|
"version": "1.4.2",
|
|
"sha256": "16r5wdlw2g9qnbvzpx5c5c04xa5dkwrmqlyc81iixkx6j98gsz2w",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "alabaster_base", "rhdf5"]
|
|
},
|
|
"alabaster_sce": {
|
|
"name": "alabaster.sce",
|
|
"version": "1.4.0",
|
|
"sha256": "1i9nmivsfrd7fbb8njmwihfx4xpj4p3h5bnlj9fvk5308bbj3qcg",
|
|
"depends": ["SingleCellExperiment", "alabaster_base", "alabaster_se", "jsonlite"]
|
|
},
|
|
"alabaster_schemas": {
|
|
"name": "alabaster.schemas",
|
|
"version": "1.4.0",
|
|
"sha256": "1cizlslxw0nhrfjsz3x90waa9w4n2v72a0cycbzvxqbbvkh3cp1l",
|
|
"depends": []
|
|
},
|
|
"alabaster_se": {
|
|
"name": "alabaster.se",
|
|
"version": "1.4.1",
|
|
"sha256": "134r4pwaa4nsmdgqxs16w3adn482zl70lgyd4s96pmx7hqm9i1vx",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "alabaster_base", "alabaster_matrix", "alabaster_ranges", "jsonlite"]
|
|
},
|
|
"alabaster_spatial": {
|
|
"name": "alabaster.spatial",
|
|
"version": "1.4.0",
|
|
"sha256": "11mgs6smyiv4r5cajzqpw0k7q0jsm6xch1b5c9w7scl7d9bq981k",
|
|
"depends": ["S4Vectors", "SpatialExperiment", "alabaster_base", "alabaster_sce", "rhdf5"]
|
|
},
|
|
"alabaster_string": {
|
|
"name": "alabaster.string",
|
|
"version": "1.4.0",
|
|
"sha256": "0p55dpfwjjikmgyq0vk9hmd6k0j3d2x4jjxd7wnabhga3vr4jg7q",
|
|
"depends": ["Biostrings", "S4Vectors", "alabaster_base"]
|
|
},
|
|
"alabaster_vcf": {
|
|
"name": "alabaster.vcf",
|
|
"version": "1.4.0",
|
|
"sha256": "1ry5gim6kkis8wy0v1afv44ay6nw8m9nd6jl89980z499pblf9j4",
|
|
"depends": ["Rsamtools", "S4Vectors", "VariantAnnotation", "alabaster_base", "alabaster_se", "alabaster_string"]
|
|
},
|
|
"alevinQC": {
|
|
"name": "alevinQC",
|
|
"version": "1.20.0",
|
|
"sha256": "1pq42lvgggysg28ngxipqb1l7jfj498nxpg40h02siz6nb6inbdw",
|
|
"depends": ["DT", "GGally", "Rcpp", "cowplot", "dplyr", "ggplot2", "rjson", "rlang", "rmarkdown", "shiny", "shinydashboard", "tximport"]
|
|
},
|
|
"altcdfenvs": {
|
|
"name": "altcdfenvs",
|
|
"version": "2.66.0",
|
|
"sha256": "08k3j3dc93vg5c9ccw7mc4fri9xbdj7rdjyj0h6ig0s5866fqvlb",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "S4Vectors", "affy", "hypergraph", "makecdfenv"]
|
|
},
|
|
"amplican": {
|
|
"name": "amplican",
|
|
"version": "1.26.0",
|
|
"sha256": "1nbyivd5020kqkmk5ngpaixhdxgmqpifaxnfgq6yc2njqizgbhxy",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "S4Vectors", "ShortRead", "cluster", "data_table", "dplyr", "ggplot2", "ggthemes", "gridExtra", "gtable", "knitr", "matrixStats", "pwalign", "rmarkdown", "stringr", "waffle"]
|
|
},
|
|
"animalcules": {
|
|
"name": "animalcules",
|
|
"version": "1.20.0",
|
|
"sha256": "1g073n8nmckd388hy9gfiddil53wv692k69ywjc85jyp5jy2n265",
|
|
"depends": ["DESeq2", "DT", "GUniFrac", "Matrix", "MultiAssayExperiment", "ROCit", "S4Vectors", "SummarizedExperiment", "XML", "ape", "assertthat", "caret", "covr", "dplyr", "forcats", "ggforce", "ggplot2", "lattice", "limma", "magrittr", "plotly", "rentrez", "reshape2", "scales", "shiny", "shinyjs", "tibble", "tidyr", "tsne", "umap", "vegan"]
|
|
},
|
|
"annaffy": {
|
|
"name": "annaffy",
|
|
"version": "1.76.0",
|
|
"sha256": "1298mn8yz4i0qqw1i8pd4ym5f65dmyb8wcmpyahzz11na4diybmj",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocManager", "DBI", "GO_db"]
|
|
},
|
|
"annmap": {
|
|
"name": "annmap",
|
|
"version": "1.46.0",
|
|
"sha256": "1xijcm0c19wj2yknrlsz2ifm097z32rc58k608482686srj0bg2i",
|
|
"depends": ["Biobase", "BiocGenerics", "DBI", "GenomicRanges", "IRanges", "RMySQL", "Rsamtools", "digest", "genefilter", "lattice"]
|
|
},
|
|
"annotate": {
|
|
"name": "annotate",
|
|
"version": "1.82.0",
|
|
"sha256": "1v4sq22lwrhl50whag0jil788wwvi4rpdaij03iwak93q998ls0f",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "XML", "httr", "xtable"]
|
|
},
|
|
"annotationTools": {
|
|
"name": "annotationTools",
|
|
"version": "1.78.0",
|
|
"sha256": "1hwawrp0pbrm9xf7fn65nj0q4s49qlnmxfjlmrv5fykyn3i1lhpq",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"annotatr": {
|
|
"name": "annotatr",
|
|
"version": "1.30.0",
|
|
"sha256": "11cc3nknbckm0v5r7dzgqzw0137w4c08ab10s9svb1y02z45a0qz",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "dplyr", "ggplot2", "readr", "regioneR", "reshape2", "rtracklayer"]
|
|
},
|
|
"anota": {
|
|
"name": "anota",
|
|
"version": "1.52.0",
|
|
"sha256": "1pg9p6982901k08iqpk0cdb9hii3k7bci9gq6an711r8a4iy3lmc",
|
|
"depends": ["multtest", "qvalue"]
|
|
},
|
|
"anota2seq": {
|
|
"name": "anota2seq",
|
|
"version": "1.26.0",
|
|
"sha256": "140k37wswl4w2136pz9y0z82sphzxmgzgk3cr400kkm39wjn7vxm",
|
|
"depends": ["DESeq2", "RColorBrewer", "SummarizedExperiment", "edgeR", "limma", "multtest", "qvalue"]
|
|
},
|
|
"antiProfiles": {
|
|
"name": "antiProfiles",
|
|
"version": "1.44.0",
|
|
"sha256": "0p2fhxzgn877mic2yv1sgcidgm74z8hxa3hdaawgvhhvi2j6v8wa",
|
|
"depends": ["locfit", "matrixStats"]
|
|
},
|
|
"apComplex": {
|
|
"name": "apComplex",
|
|
"version": "2.70.0",
|
|
"sha256": "1fsqrds5r8bhdf7fbnw6rf3vqapl6xk1a5l6jjb98raxmjsrfyqs",
|
|
"depends": ["RBGL", "Rgraphviz", "graph", "org_Sc_sgd_db"]
|
|
},
|
|
"apeglm": {
|
|
"name": "apeglm",
|
|
"version": "1.26.1",
|
|
"sha256": "039my876v0k2mr50w90w3phj4cq55awf5ks07kr2fnm7w211gxvs",
|
|
"depends": ["GenomicRanges", "Rcpp", "RcppEigen", "RcppNumerical", "SummarizedExperiment", "emdbook"]
|
|
},
|
|
"appreci8R": {
|
|
"name": "appreci8R",
|
|
"version": "1.22.0",
|
|
"sha256": "1nwb7475lhclyd0jdwm0sp1wh2rgs2h16k4hin6z44axix5v7jhr",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "Biostrings", "COSMIC_67", "DT", "GenomicFeatures", "GenomicRanges", "GenomicScores", "Homo_sapiens", "IRanges", "MafDb_1Kgenomes_phase3_hs37d5", "MafDb_ExAC_r1_0_hs37d5", "MafDb_gnomADex_r2_1_hs37d5", "PolyPhen_Hsapiens_dbSNP131", "Rsamtools", "S4Vectors", "SIFT_Hsapiens_dbSNP137", "SNPlocs_Hsapiens_dbSNP144_GRCh37", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "VariantAnnotation", "XtraSNPlocs_Hsapiens_dbSNP144_GRCh37", "openxlsx", "rentrez", "seqinr", "shiny", "shinyjs", "stringr"]
|
|
},
|
|
"aroma_light": {
|
|
"name": "aroma.light",
|
|
"version": "3.34.0",
|
|
"sha256": "1v24b43knsjpw44zkrzv8pvxjiw12rcz9wqp4ahd88dg23j7pvwz",
|
|
"depends": ["R_methodsS3", "R_oo", "R_utils", "matrixStats"]
|
|
},
|
|
"arrayMvout": {
|
|
"name": "arrayMvout",
|
|
"version": "1.62.0",
|
|
"sha256": "11v3s972nyahdswqdcab0fj9jb73vd5dnd5kfb09572y4z0hn5xw",
|
|
"depends": ["Biobase", "affy", "affyContam", "lumi", "mdqc", "parody"]
|
|
},
|
|
"arrayQuality": {
|
|
"name": "arrayQuality",
|
|
"version": "1.82.0",
|
|
"sha256": "0wmczy2wdxki9pam9q6ly5clvqbl018v1ar4zkdm8algjddyc2cp",
|
|
"depends": ["RColorBrewer", "gridBase", "hexbin", "limma", "marray"]
|
|
},
|
|
"arrayQualityMetrics": {
|
|
"name": "arrayQualityMetrics",
|
|
"version": "3.60.0",
|
|
"sha256": "04y1vbpxqhqn1vsyqmscikaxn6wshsk4krcqzf2baf9x4azbdjk1",
|
|
"depends": ["Biobase", "Hmisc", "RColorBrewer", "XML", "affy", "affyPLM", "beadarray", "genefilter", "gridSVG", "hwriter", "lattice", "latticeExtra", "limma", "setRNG", "svglite", "vsn"]
|
|
},
|
|
"artMS": {
|
|
"name": "artMS",
|
|
"version": "1.22.0",
|
|
"sha256": "11a6igby8kz2r5wawrsisz22v4hak9004zr8y87v3pp92rnvb3ma",
|
|
"depends": ["AnnotationDbi", "MSstats", "RColorBrewer", "UpSetR", "VennDiagram", "bit64", "circlize", "cluster", "corrplot", "data_table", "dplyr", "getopt", "ggdendro", "ggplot2", "ggrepel", "gplots", "limma", "openxlsx", "org_Hs_eg_db", "pheatmap", "plotly", "plyr", "scales", "seqinr", "stringr", "tidyr", "yaml"]
|
|
},
|
|
"atSNP": {
|
|
"name": "atSNP",
|
|
"version": "1.20.0",
|
|
"sha256": "08pcbys8iy8wzqzzvlnwc3qw7m7cswkqa3x2x2x8m4ni1s4isd6z",
|
|
"depends": ["BSgenome", "BiocFileCache", "BiocParallel", "Rcpp", "data_table", "ggplot2", "lifecycle", "motifStack", "rappdirs", "testthat"]
|
|
},
|
|
"atena": {
|
|
"name": "atena",
|
|
"version": "1.10.0",
|
|
"sha256": "1y2v8mi9awgfbcawpcir01qglxn0bdgj6v2dsdqp6if25cizl3sr",
|
|
"depends": ["AnnotationHub", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "MatrixGenerics", "Rsamtools", "S4Vectors", "SQUAREM", "SummarizedExperiment", "cli", "matrixStats", "sparseMatrixStats"]
|
|
},
|
|
"attract": {
|
|
"name": "attract",
|
|
"version": "1.56.0",
|
|
"sha256": "08l634sk6y06y2m78vsd0ld4w3h6qvx4hk6wkqflkl9jjyqpx8jy",
|
|
"depends": ["AnnotationDbi", "Biobase", "GOstats", "KEGGREST", "cluster", "limma", "org_Hs_eg_db", "reactome_db"]
|
|
},
|
|
"autonomics": {
|
|
"name": "autonomics",
|
|
"version": "1.12.1",
|
|
"sha256": "1fzzj0v6v4jvr3wh5bnjr6h2ny8zfm9pdlbhq5syaa2plvsbblpy",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "MultiAssayExperiment", "RColorBrewer", "R_utils", "S4Vectors", "SummarizedExperiment", "abind", "bit64", "codingMatrices", "colorspace", "data_table", "dplyr", "edgeR", "ggforce", "ggplot2", "ggrepel", "gridExtra", "limma", "magrittr", "matrixStats", "readxl", "rlang", "scales", "stringi", "tidyr", "tidyselect", "vsn"]
|
|
},
|
|
"awst": {
|
|
"name": "awst",
|
|
"version": "1.12.0",
|
|
"sha256": "1iaakdjxrz4szl4lnjcszy47q5dsh2d7i3wrr3wwdhw6wjcd62hj",
|
|
"depends": ["SummarizedExperiment"]
|
|
},
|
|
"bacon": {
|
|
"name": "bacon",
|
|
"version": "1.32.0",
|
|
"sha256": "09lvjb0fa70kcl7mkp4agxv6jcm2ncmnrffav6zmz038imhmvdgm",
|
|
"depends": ["BiocParallel", "ellipse", "ggplot2"]
|
|
},
|
|
"ballgown": {
|
|
"name": "ballgown",
|
|
"version": "2.36.0",
|
|
"sha256": "0x3avbqf0ipmb70szf2chhbdg14ba2hwhyyz0wd66c1qwfk6aj9v",
|
|
"depends": ["Biobase", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "limma", "rtracklayer", "sva"]
|
|
},
|
|
"bambu": {
|
|
"name": "bambu",
|
|
"version": "3.6.0",
|
|
"sha256": "1pn6a74nvcpn0xzfb8167hbc6pdma0ybhh7kjpqdl4hgjp446w5w",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rcpp", "RcppArmadillo", "Rsamtools", "S4Vectors", "SummarizedExperiment", "data_table", "dplyr", "tidyr", "xgboost"]
|
|
},
|
|
"bamsignals": {
|
|
"name": "bamsignals",
|
|
"version": "1.36.0",
|
|
"sha256": "1jq993m6b0cv3ibgjrbzyka7svb653hvi6bvqhf8ir3lgjgs23dp",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "Rcpp", "Rhtslib", "zlibbioc"]
|
|
},
|
|
"bandle": {
|
|
"name": "bandle",
|
|
"version": "1.8.0",
|
|
"sha256": "0lkmwr207s26kxmhfcsay4mb3fg70wjcrhhjj82g5yjrycmjidm9",
|
|
"depends": ["BH", "Biobase", "BiocParallel", "BiocStyle", "MSnbase", "Rcpp", "RcppArmadillo", "S4Vectors", "circlize", "dplyr", "ggalluvial", "ggplot2", "ggrepel", "knitr", "lbfgs", "pRoloc", "pRolocdata", "plyr", "rlang", "robustbase", "tidyr"]
|
|
},
|
|
"banocc": {
|
|
"name": "banocc",
|
|
"version": "1.28.0",
|
|
"sha256": "12fysw9m3rrmyfq1j97rdklaln6vgjdmz7hj85vrh10haz9j23s2",
|
|
"depends": ["coda", "mvtnorm", "rstan", "stringr"]
|
|
},
|
|
"barcodetrackR": {
|
|
"name": "barcodetrackR",
|
|
"version": "1.12.0",
|
|
"sha256": "0x0fpa44lyww2l1rdc35pdlgczz4y1vxjbn0s1frlpaacmqcxrly",
|
|
"depends": ["RColorBrewer", "S4Vectors", "SummarizedExperiment", "circlize", "cowplot", "dplyr", "ggdendro", "ggplot2", "ggridges", "magrittr", "plyr", "proxy", "rlang", "scales", "shiny", "tibble", "tidyr", "vegan", "viridis"]
|
|
},
|
|
"basecallQC": {
|
|
"name": "basecallQC",
|
|
"version": "1.28.0",
|
|
"sha256": "033agi9xcyr2mpryyqjzd1diinv3cnam6f13qw4xfg0fncn0rm83",
|
|
"depends": ["DT", "ShortRead", "XML", "data_table", "dplyr", "ggplot2", "knitr", "lazyeval", "magrittr", "prettydoc", "raster", "rmarkdown", "stringr", "tidyr", "yaml"]
|
|
},
|
|
"basilisk": {
|
|
"name": "basilisk",
|
|
"version": "1.16.0",
|
|
"sha256": "1jhaar524z4ly8d4c7nyjn094m4sgz4vhh8qljd2yvs30xxs0jin",
|
|
"depends": ["basilisk_utils", "dir_expiry", "reticulate"]
|
|
},
|
|
"basilisk_utils": {
|
|
"name": "basilisk.utils",
|
|
"version": "1.16.0",
|
|
"sha256": "04amc13h4ghy1zr9wkdl42wgicxz5s2iwsspxvvi18acm06nzgfh",
|
|
"depends": ["dir_expiry"]
|
|
},
|
|
"batchelor": {
|
|
"name": "batchelor",
|
|
"version": "1.20.0",
|
|
"sha256": "1h70rm0h711ndj9kz3q10yd9f6npjiwvk9wmkg6w3pdgjni1nrl0",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "Matrix", "Rcpp", "ResidualMatrix", "S4Vectors", "ScaledMatrix", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "igraph", "scuttle"]
|
|
},
|
|
"bayNorm": {
|
|
"name": "bayNorm",
|
|
"version": "1.22.0",
|
|
"sha256": "0b05446vcqxr7smxyhmvl6rxlckzzgqhf5v1059657kihhscqr7s",
|
|
"depends": ["BB", "BiocParallel", "MASS", "Matrix", "Rcpp", "RcppArmadillo", "RcppProgress", "SingleCellExperiment", "SummarizedExperiment", "doSNOW", "fitdistrplus", "foreach", "iterators", "locfit"]
|
|
},
|
|
"baySeq": {
|
|
"name": "baySeq",
|
|
"version": "2.38.0",
|
|
"sha256": "0nlkynzijxl6f8983vdpmcssvrpjf6s42zx3lxfwxwlhrvz1yg9l",
|
|
"depends": ["GenomicRanges", "abind", "edgeR"]
|
|
},
|
|
"bcSeq": {
|
|
"name": "bcSeq",
|
|
"version": "1.26.0",
|
|
"sha256": "0bbr46clvr1nlqk7lkdyvz5y0yfvw1rxsm29gsanfqbxa3akvxn6",
|
|
"depends": ["Biostrings", "Matrix", "Rcpp"]
|
|
},
|
|
"beachmat": {
|
|
"name": "beachmat",
|
|
"version": "2.20.0",
|
|
"sha256": "0gvxz9w2mi8scqyyhhnrasscs7hwvxxlqvh7j9m6akpi8qq91v6y",
|
|
"depends": ["BiocGenerics", "DelayedArray", "Matrix", "Rcpp", "SparseArray"]
|
|
},
|
|
"beachmat_hdf5": {
|
|
"name": "beachmat.hdf5",
|
|
"version": "1.2.0",
|
|
"sha256": "1qjib3vw0b0nvfx3j5nfgwikcmc5jq49ddahv05arhdabd40vmg4",
|
|
"depends": ["DelayedArray", "HDF5Array", "Rcpp", "Rhdf5lib", "beachmat"]
|
|
},
|
|
"beadarray": {
|
|
"name": "beadarray",
|
|
"version": "2.54.0",
|
|
"sha256": "0yda6maj985k374bh6zkrs8qffw1jrz9gc3mja07ibyn4pvzkclq",
|
|
"depends": ["AnnotationDbi", "BeadDataPackR", "Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "ggplot2", "hexbin", "illuminaio", "limma", "reshape2"]
|
|
},
|
|
"beer": {
|
|
"name": "beer",
|
|
"version": "1.8.0",
|
|
"sha256": "1b7pw7nwpryrdji14y9cbv03f8g8r8lzf1fd72ff2b69csp993ww",
|
|
"depends": ["BiocParallel", "PhIPData", "SummarizedExperiment", "cli", "edgeR", "progressr", "rjags"]
|
|
},
|
|
"benchdamic": {
|
|
"name": "benchdamic",
|
|
"version": "1.10.0",
|
|
"sha256": "040lkmwz51za2biqlf3z3ai5j03rmw15kwz3i3v10rzq0322fsk3",
|
|
"depends": ["ALDEx2", "ANCOMBC", "BiocParallel", "DESeq2", "GUniFrac", "MAST", "MGLM", "Maaslin2", "MicrobiomeStat", "NOISeq", "RColorBrewer", "Seurat", "SummarizedExperiment", "TreeSummarizedExperiment", "corncob", "cowplot", "dearseq", "edgeR", "ggdendro", "ggplot2", "ggridges", "limma", "lme4", "metagenomeSeq", "mixOmics", "phyloseq", "plyr", "reshape2", "tidytext", "zinbwave"]
|
|
},
|
|
"betaHMM": {
|
|
"name": "betaHMM",
|
|
"version": "1.0.0",
|
|
"sha256": "1dwdjfvca22gaz0qjngf3fc32bpybz1dvvbwd91wgznzk7wjk6yq",
|
|
"depends": ["GenomicRanges", "S4Vectors", "SummarizedExperiment", "cowplot", "doParallel", "dplyr", "foreach", "ggplot2", "pROC", "scales", "stringr", "tidyr", "tidyselect"]
|
|
},
|
|
"bettr": {
|
|
"name": "bettr",
|
|
"version": "1.0.0",
|
|
"sha256": "19z7df9kmk4zfbljlq5ginl82zml37iyjnjm0fqinm2b9i1ww432",
|
|
"depends": ["ComplexHeatmap", "DT", "Hmisc", "S4Vectors", "SummarizedExperiment", "bslib", "circlize", "cowplot", "dplyr", "ggplot2", "rlang", "scales", "shiny", "shinyjqui", "sortable", "tibble", "tidyr"]
|
|
},
|
|
"bgx": {
|
|
"name": "bgx",
|
|
"version": "1.70.0",
|
|
"sha256": "0sglk8q12fvqk6m699v3lajwr1zb8wnrldfv2n8y7jjy2fqcvs19",
|
|
"depends": ["Biobase", "Rcpp", "affy", "gcrma"]
|
|
},
|
|
"bigmelon": {
|
|
"name": "bigmelon",
|
|
"version": "1.30.0",
|
|
"sha256": "0fa1dwbk6hdiwg6dmbks7hy4cg3ydyd2sv94cyl0003awhf00nn9",
|
|
"depends": ["Biobase", "BiocGenerics", "GEOquery", "gdsfmt", "illuminaio", "methylumi", "minfi", "wateRmelon"]
|
|
},
|
|
"bioCancer": {
|
|
"name": "bioCancer",
|
|
"version": "1.32.0",
|
|
"sha256": "0mwmdavakmrfa7d7h0h14lkk6k7ps3g8hvbja1hq01nkdfy7imvp",
|
|
"depends": ["AlgDesign", "AnnotationDbi", "Biobase", "DOSE", "DT", "DiagrammeR", "GO_db", "R_methodsS3", "R_oo", "ReactomePA", "XML", "cBioPortalData", "clusterProfiler", "dplyr", "geNetClassifier", "htmlwidgets", "org_Bt_eg_db", "org_Hs_eg_db", "plyr", "r_import", "radiant_data", "reactome_db", "shiny", "shinythemes", "tibble", "tidyr", "visNetwork"]
|
|
},
|
|
"bioDist": {
|
|
"name": "bioDist",
|
|
"version": "1.76.0",
|
|
"sha256": "1yxr5df1y8v5c9imh27j86s7g9wjvi51j2wyn8jgma875mad41hq",
|
|
"depends": ["Biobase", "KernSmooth"]
|
|
},
|
|
"bioassayR": {
|
|
"name": "bioassayR",
|
|
"version": "1.42.0",
|
|
"sha256": "0rckhgg73cgz0ppqaywc7nvbnp1is6cyjfa7dn2l32xxrcl57pq6",
|
|
"depends": ["BiocGenerics", "ChemmineR", "DBI", "Matrix", "RSQLite", "XML", "rjson"]
|
|
},
|
|
"biobroom": {
|
|
"name": "biobroom",
|
|
"version": "1.36.0",
|
|
"sha256": "0flj14d8aamr1fzcpd0k7jq5rs0j5dsijpahg066qrnapn5990d0",
|
|
"depends": ["Biobase", "broom", "dplyr", "tidyr"]
|
|
},
|
|
"biobtreeR": {
|
|
"name": "biobtreeR",
|
|
"version": "1.16.0",
|
|
"sha256": "0660rc8b4vkic4dbf64wkky68f0hk92ip52x7gihvv203cj9fin4",
|
|
"depends": ["httpuv", "httr", "jsonlite", "stringi"]
|
|
},
|
|
"biocGraph": {
|
|
"name": "biocGraph",
|
|
"version": "1.66.0",
|
|
"sha256": "0ji6pa8wfj57drpnp03vgas1pird84g15nnp6469jmx773izhfq0",
|
|
"depends": ["BiocGenerics", "Rgraphviz", "geneplotter", "graph"]
|
|
},
|
|
"biocViews": {
|
|
"name": "biocViews",
|
|
"version": "1.72.0",
|
|
"sha256": "10j9s50ppfx8r752wkabls0n4gxp17z7dnaf352f3dcdbfa8ijh5",
|
|
"depends": ["Biobase", "BiocManager", "RBGL", "RCurl", "RUnit", "XML", "graph"]
|
|
},
|
|
"biocroxytest": {
|
|
"name": "biocroxytest",
|
|
"version": "1.0.0",
|
|
"sha256": "0na0qbrqjfyq6wlxfnp6h6ljdmcxs5nq4spbifk6v74cxm7aqgni",
|
|
"depends": ["cli", "glue", "roxygen2", "stringr"]
|
|
},
|
|
"biocthis": {
|
|
"name": "biocthis",
|
|
"version": "1.14.0",
|
|
"sha256": "1f09vw5qjxyirz5xbvnnjlwxg7z0i0y8yry49d1gyx0spyhzl7sp",
|
|
"depends": ["BiocManager", "fs", "glue", "rlang", "styler", "usethis"]
|
|
},
|
|
"biodb": {
|
|
"name": "biodb",
|
|
"version": "1.12.0",
|
|
"sha256": "0zkd6505q0myc5l9d69i1fvfhcrjqxkv208p84zr5p7xi8jmg3dw",
|
|
"depends": ["BiocFileCache", "R6", "RCurl", "RSQLite", "Rcpp", "XML", "chk", "git2r", "jsonlite", "lgr", "lifecycle", "openssl", "plyr", "progress", "rappdirs", "stringr", "testthat", "withr", "yaml"]
|
|
},
|
|
"biodbChebi": {
|
|
"name": "biodbChebi",
|
|
"version": "1.10.0",
|
|
"sha256": "1w3mnryv1x5a68llnpqfdsrkzwrwq2b7n6hm458gfkw6ql070109",
|
|
"depends": ["R6", "biodb"]
|
|
},
|
|
"biodbExpasy": {
|
|
"name": "biodbExpasy",
|
|
"version": "1.8.1",
|
|
"sha256": "0n5avxhv5131122h18d3r2v9c64i3nb251hmz8hhc6chmk203fmj",
|
|
"depends": ["R6", "biodb", "chk", "stringr"]
|
|
},
|
|
"biodbHmdb": {
|
|
"name": "biodbHmdb",
|
|
"version": "1.10.1",
|
|
"sha256": "14g5c043rgwp259z5km4wvl5h9810fxpsja4wmk326plqpnqhcjr",
|
|
"depends": ["R6", "Rcpp", "biodb", "testthat", "zip"]
|
|
},
|
|
"biodbKegg": {
|
|
"name": "biodbKegg",
|
|
"version": "1.10.2",
|
|
"sha256": "0rwxbg3ij5rg3agzsxib7f80b05ar40xnql2krl44c3n43yqkwyw",
|
|
"depends": ["R6", "biodb", "chk", "lifecycle"]
|
|
},
|
|
"biodbLipidmaps": {
|
|
"name": "biodbLipidmaps",
|
|
"version": "1.10.0",
|
|
"sha256": "1p181kwy9q8jj4m7flg71pqn7h6865hbwha4n6j2qki830vym6rv",
|
|
"depends": ["R6", "biodb", "lifecycle"]
|
|
},
|
|
"biodbNcbi": {
|
|
"name": "biodbNcbi",
|
|
"version": "1.8.0",
|
|
"sha256": "01v0lym2kldcjypqsx9b8k8hvxdmnr1rsczdzl87nsax22q6g9hc",
|
|
"depends": ["R6", "XML", "biodb", "chk"]
|
|
},
|
|
"biodbNci": {
|
|
"name": "biodbNci",
|
|
"version": "1.8.0",
|
|
"sha256": "11xzf804v9dp25zw7kxwws2q386h22ybibrcplm3wrkrxj223kks",
|
|
"depends": ["R6", "Rcpp", "biodb", "chk", "testthat"]
|
|
},
|
|
"biodbUniprot": {
|
|
"name": "biodbUniprot",
|
|
"version": "1.10.0",
|
|
"sha256": "1jwv6y9kaq2d7iswgz602yhwg35c9d9yqa9c87d454n0wrl6h6yg",
|
|
"depends": ["R6", "biodb"]
|
|
},
|
|
"biomaRt": {
|
|
"name": "biomaRt",
|
|
"version": "2.60.1",
|
|
"sha256": "0mzdxpagxwiwyznhd7h93cgy01a2j85rgb5dpnkzgp4sxw01n7rb",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "digest", "httr2", "progress", "rappdirs", "stringr", "xml2"]
|
|
},
|
|
"biomformat": {
|
|
"name": "biomformat",
|
|
"version": "1.32.0",
|
|
"sha256": "0jys0nmp833ax96vfdh1adikpyapr5gkmldx5kvv5bqiqc8aipzb",
|
|
"depends": ["Matrix", "jsonlite", "plyr", "rhdf5"]
|
|
},
|
|
"biomvRCNS": {
|
|
"name": "biomvRCNS",
|
|
"version": "1.44.0",
|
|
"sha256": "1wk0qagx9s2lxykc1fp7l35kl6q17lqy6x4fl2c57v3wa11f47mi",
|
|
"depends": ["GenomicRanges", "Gviz", "IRanges", "mvtnorm"]
|
|
},
|
|
"biosigner": {
|
|
"name": "biosigner",
|
|
"version": "1.32.0",
|
|
"sha256": "1c56s8lr5cdx27v0rdi4l4h680x6ga9wazf4dj1xkqyliqz65ps5",
|
|
"depends": ["Biobase", "MultiAssayExperiment", "MultiDataSet", "SummarizedExperiment", "e1071", "randomForest", "ropls"]
|
|
},
|
|
"biotmle": {
|
|
"name": "biotmle",
|
|
"version": "1.28.0",
|
|
"sha256": "06kixhzkrzxyic44kdmqrv19v2c4a7sri8cbhbvww8km4n5l39sf",
|
|
"depends": ["BiocGenerics", "BiocParallel", "S4Vectors", "SummarizedExperiment", "assertthat", "dplyr", "drtmle", "ggplot2", "ggsci", "limma", "superheat", "tibble"]
|
|
},
|
|
"biovizBase": {
|
|
"name": "biovizBase",
|
|
"version": "1.52.0",
|
|
"sha256": "1jbcnjjwdjy7zfy0ybgfy1y5ym7rygzkailr5bm4hnh9bn2837p7",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Hmisc", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "dichromat", "ensembldb", "rlang", "scales"]
|
|
},
|
|
"biscuiteer": {
|
|
"name": "biscuiteer",
|
|
"version": "1.18.0",
|
|
"sha256": "15bisrcgyiv9ndfvgm0p4igyr4jwsf68ccis1nf1hi9x291k7m6y",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "DelayedMatrixStats", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "Homo_sapiens", "IRanges", "Matrix", "Mus_musculus", "QDNAseq", "R_utils", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "biscuiteerData", "bsseq", "data_table", "dmrseq", "gtools", "impute", "matrixStats", "qualV", "readr", "rtracklayer"]
|
|
},
|
|
"blacksheepr": {
|
|
"name": "blacksheepr",
|
|
"version": "1.18.0",
|
|
"sha256": "1avqq6m30x2bg3h32laxcpbd4f5s10548k3cj4xb1d25svnn8pax",
|
|
"depends": ["ComplexHeatmap", "RColorBrewer", "SummarizedExperiment", "circlize", "pasilla", "viridis"]
|
|
},
|
|
"blima": {
|
|
"name": "blima",
|
|
"version": "1.38.0",
|
|
"sha256": "1a5rzwgsvkwzl97p6pvbhi8dsvd7vbny0bajjp273czrm09yk8rc",
|
|
"depends": ["Biobase", "BiocGenerics", "Rcpp", "beadarray"]
|
|
},
|
|
"bluster": {
|
|
"name": "bluster",
|
|
"version": "1.14.0",
|
|
"sha256": "1bj7wx2dnwbrv2gxcmqmq815vawfiqj2xy3624fjli11r8c1hywa",
|
|
"depends": ["BiocNeighbors", "BiocParallel", "Matrix", "Rcpp", "S4Vectors", "cluster", "igraph"]
|
|
},
|
|
"bnbc": {
|
|
"name": "bnbc",
|
|
"version": "1.26.0",
|
|
"sha256": "09vy9igcnw927j0zb4znrbcknkaic69ly6w4syb1cwysr0rvmrdz",
|
|
"depends": ["BiocGenerics", "EBImage", "GenomeInfoDb", "GenomicRanges", "HiCBricks", "IRanges", "Rcpp", "S4Vectors", "SummarizedExperiment", "data_table", "matrixStats", "preprocessCore", "rhdf5", "sva"]
|
|
},
|
|
"bnem": {
|
|
"name": "bnem",
|
|
"version": "1.12.0",
|
|
"sha256": "15jzsba3qdkj5y7gqxklgv69r5bq2li4irvjkhmbjnjlv0pv4wdg",
|
|
"depends": ["Biobase", "CellNOptR", "RColorBrewer", "Rgraphviz", "affy", "binom", "cluster", "epiNEM", "flexclust", "graph", "limma", "matrixStats", "mnem", "rmarkdown", "snowfall", "sva", "vsn"]
|
|
},
|
|
"borealis": {
|
|
"name": "borealis",
|
|
"version": "1.8.0",
|
|
"sha256": "1m7yq1sx4ivbcrjm1w3l5qsyhlv0jdkb5l91kxd5hvisakfdrfz9",
|
|
"depends": ["Biobase", "DSS", "GenomicRanges", "R_utils", "bsseq", "cowplot", "doParallel", "dplyr", "foreach", "gamlss", "gamlss_dist", "ggplot2", "plyr", "purrr", "rlang", "snow"]
|
|
},
|
|
"branchpointer": {
|
|
"name": "branchpointer",
|
|
"version": "1.30.0",
|
|
"sha256": "034sa73ll152s24cgrz47br7kyswr7jn6c735mp6dvbhppmlj2xm",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg38", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "biomaRt", "caret", "cowplot", "data_table", "gbm", "ggplot2", "kernlab", "plyr", "rtracklayer", "stringr"]
|
|
},
|
|
"breakpointR": {
|
|
"name": "breakpointR",
|
|
"version": "1.22.0",
|
|
"sha256": "0imbsqrslclvfyvc00sv6ngvl5hqlr6ian07v521m63ffpx6ll78",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "breakpointRdata", "cowplot", "doParallel", "foreach", "ggplot2", "gtools"]
|
|
},
|
|
"brendaDb": {
|
|
"name": "brendaDb",
|
|
"version": "1.18.0",
|
|
"sha256": "1rhmd3v20y2cw70zpzykpz7bidf000dq904c2qlf58nqwclxj88l",
|
|
"depends": ["BiocFileCache", "BiocParallel", "Rcpp", "crayon", "dplyr", "magrittr", "purrr", "rappdirs", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"bsseq": {
|
|
"name": "bsseq",
|
|
"version": "1.40.0",
|
|
"sha256": "1b7a9ryl4lz6qy2pni3k9bk6hdf147s3m7fx0icg6fkgi0ymssyx",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DelayedArray", "DelayedMatrixStats", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "R_utils", "Rcpp", "S4Vectors", "SummarizedExperiment", "beachmat", "data_table", "gtools", "limma", "locfit", "permute", "rhdf5", "scales"]
|
|
},
|
|
"bugsigdbr": {
|
|
"name": "bugsigdbr",
|
|
"version": "1.10.0",
|
|
"sha256": "0fg7rk14jgpr07wm93i40wklxphag9yw56kr59rw1cfdfhqnmsv7",
|
|
"depends": ["BiocFileCache", "vroom"]
|
|
},
|
|
"bumphunter": {
|
|
"name": "bumphunter",
|
|
"version": "1.46.0",
|
|
"sha256": "08b5d0grmpk5pryffdh6gdafhp1brana353q2kmwhz7x55aq3w68",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "doRNG", "foreach", "iterators", "limma", "locfit", "matrixStats"]
|
|
},
|
|
"cBioPortalData": {
|
|
"name": "cBioPortalData",
|
|
"version": "2.16.0",
|
|
"sha256": "0s1qy46z78hlk37lnvqh1zi36y90299f6ym82k2d60jbw8aw2jxa",
|
|
"depends": ["AnVIL", "BiocFileCache", "GenomeInfoDb", "GenomicRanges", "IRanges", "MultiAssayExperiment", "RTCGAToolbox", "RaggedExperiment", "S4Vectors", "SummarizedExperiment", "TCGAutils", "digest", "dplyr", "httr", "readr", "tibble", "tidyr"]
|
|
},
|
|
"cTRAP": {
|
|
"name": "cTRAP",
|
|
"version": "1.22.0",
|
|
"sha256": "119hnbv0p3mgr3zh9dff9pwllnsk790hm0ahypzpr08gwg2ml9lb",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "DT", "R_utils", "binr", "cowplot", "data_table", "dplyr", "fastmatch", "fgsea", "ggplot2", "ggrepel", "highcharter", "htmltools", "httr", "limma", "pbapply", "purrr", "qs", "readxl", "reshape2", "rhdf5", "rlang", "scales", "shiny", "shinycssloaders", "tibble"]
|
|
},
|
|
"cageminer": {
|
|
"name": "cageminer",
|
|
"version": "1.10.0",
|
|
"sha256": "0ijagv7yzlil4mdibip5css7asdrnzfr2lq3r9zq8fkf4fwr2mpx",
|
|
"depends": ["BioNERO", "GenomeInfoDb", "GenomicRanges", "IRanges", "ggbio", "ggplot2", "ggtext", "reshape2", "rlang"]
|
|
},
|
|
"calm": {
|
|
"name": "calm",
|
|
"version": "1.18.0",
|
|
"sha256": "0sbl44747xc7m4jpf318gb7cb1hx6r2mw4bk81da7d5d8kpi9n9s",
|
|
"depends": ["mgcv"]
|
|
},
|
|
"canceR": {
|
|
"name": "canceR",
|
|
"version": "1.38.0",
|
|
"sha256": "1hmc4sw3w5wsix7ixr85lplpp6hxrd5xpf5apvr77hligw61dhvs",
|
|
"depends": ["Biobase", "Formula", "GSEABase", "RUnit", "R_methodsS3", "R_oo", "cBioPortalData", "circlize", "dplyr", "geNetClassifier", "phenoTest", "plyr", "rpart", "survival", "tidyr", "tkrplot"]
|
|
},
|
|
"cancerclass": {
|
|
"name": "cancerclass",
|
|
"version": "1.48.0",
|
|
"sha256": "00lin7likd0ffqk2nqx5ql8v3zpr82xprv36c1gzw0wkrgp3rgmw",
|
|
"depends": ["Biobase", "binom"]
|
|
},
|
|
"cardelino": {
|
|
"name": "cardelino",
|
|
"version": "1.6.0",
|
|
"sha256": "16mczwh41gf7ikbzxvggai7a8d64fn2k7q9w1yxf0sn6cwg3l0di",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "Matrix", "S4Vectors", "VariantAnnotation", "combinat", "ggplot2", "ggtree", "matrixStats", "pheatmap", "snpStats", "vcfR"]
|
|
},
|
|
"casper": {
|
|
"name": "casper",
|
|
"version": "2.38.0",
|
|
"sha256": "0bwjnncm93j99m38mv99i1pw42cjmib4sqzw5nhb6p9mj39mm3zb",
|
|
"depends": ["Biobase", "BiocGenerics", "EBarrays", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "VGAM", "coda", "gaga", "gtools", "limma", "mgcv", "rtracklayer", "sqldf", "survival"]
|
|
},
|
|
"categoryCompare": {
|
|
"name": "categoryCompare",
|
|
"version": "1.48.0",
|
|
"sha256": "0mfmv3wna7dddf4i3ckh2iin8vq05g4fjb1n2pvw0s9lz3da3rjf",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "Category", "GOstats", "GSEABase", "RCy3", "annotate", "colorspace", "graph", "hwriter"]
|
|
},
|
|
"cbaf": {
|
|
"name": "cbaf",
|
|
"version": "1.26.3",
|
|
"sha256": "1lpz3n288v32nbb0g4jb1mxmx79amm29m40w3sfkgllnjjdwsyd3",
|
|
"depends": ["BiocFileCache", "RColorBrewer", "cBioPortalData", "genefilter", "gplots", "openxlsx"]
|
|
},
|
|
"cbpManager": {
|
|
"name": "cbpManager",
|
|
"version": "1.12.0",
|
|
"sha256": "1idlxmnbyvc1nzshnvf3p4y9xdjb2kdcm05kpf3ihh993igddk14",
|
|
"depends": ["DT", "basilisk", "dplyr", "htmltools", "jsonlite", "magrittr", "markdown", "plyr", "rapportools", "reticulate", "rintrojs", "rlang", "shiny", "shinyBS", "shinycssloaders", "shinydashboard", "vroom"]
|
|
},
|
|
"ccImpute": {
|
|
"name": "ccImpute",
|
|
"version": "1.6.1",
|
|
"sha256": "043lw1v8kkilki5gq6rjbfbyln39qlld55ch6wnz8qh2yv3k427i",
|
|
"depends": ["BiocParallel", "Matrix", "Rcpp", "RcppEigen", "SingleCellExperiment", "SummarizedExperiment", "irlba", "sparseMatrixStats"]
|
|
},
|
|
"ccfindR": {
|
|
"name": "ccfindR",
|
|
"version": "1.24.0",
|
|
"sha256": "1n9dncj7d3ijk6h6fkgmh3a0c6xrfll2fifkl2bz26ndq9i4m1q9",
|
|
"depends": ["Matrix", "RColorBrewer", "Rcpp", "RcppEigen", "Rdpack", "Rmpi", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ape", "gtools", "irlba"]
|
|
},
|
|
"ccmap": {
|
|
"name": "ccmap",
|
|
"version": "1.30.0",
|
|
"sha256": "16n0z3rvwaqzqgv59v73i29f66ywsabargywxwh6acv0xgnrn6w6",
|
|
"depends": ["AnnotationDbi", "BiocManager", "ccdata", "data_table", "doParallel", "foreach", "lsa", "xgboost"]
|
|
},
|
|
"ccrepe": {
|
|
"name": "ccrepe",
|
|
"version": "1.40.0",
|
|
"sha256": "1232pfjv5qd776zckhyxnj1i36raad37z9xwap9m3chqh673a7wl",
|
|
"depends": ["infotheo"]
|
|
},
|
|
"ceRNAnetsim": {
|
|
"name": "ceRNAnetsim",
|
|
"version": "1.16.0",
|
|
"sha256": "1zpdh9hdx3iayyrzvn67ids374pc891blag58gb28dv2xpzfqn9m",
|
|
"depends": ["dplyr", "furrr", "future", "ggplot2", "ggraph", "igraph", "purrr", "rlang", "tibble", "tidygraph", "tidyr"]
|
|
},
|
|
"celaref": {
|
|
"name": "celaref",
|
|
"version": "1.22.0",
|
|
"sha256": "1l2bf3fhapvpaq30qdrc6nd1chfa4yjish9w9cq7lbhl3xm9b82z",
|
|
"depends": ["BiocGenerics", "DelayedArray", "MAST", "Matrix", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "magrittr", "readr", "rlang", "tibble"]
|
|
},
|
|
"celda": {
|
|
"name": "celda",
|
|
"version": "1.20.0",
|
|
"sha256": "0d2vmjgcz5d4nimi3rxk7smbl2ywrgayasjna7kaqvf726ab71qr",
|
|
"depends": ["ComplexHeatmap", "DelayedArray", "MCMCprecision", "Matrix", "RColorBrewer", "Rcpp", "RcppEigen", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circlize", "data_table", "dbscan", "digest", "doParallel", "enrichR", "foreach", "ggplot2", "ggrepel", "gridExtra", "gtable", "matrixStats", "plyr", "reshape2", "scales", "scater", "scran", "stringr", "uwot", "withr"]
|
|
},
|
|
"cellHTS2": {
|
|
"name": "cellHTS2",
|
|
"version": "2.68.0",
|
|
"sha256": "0iqsxs84dcr4d1y5pg4799vv3jpf5i1hhq4fhgdp05lanx5qqpsz",
|
|
"depends": ["Biobase", "BiocGenerics", "Category", "GSEABase", "RColorBrewer", "genefilter", "hwriter", "locfit", "splots", "vsn"]
|
|
},
|
|
"cellbaseR": {
|
|
"name": "cellbaseR",
|
|
"version": "1.28.0",
|
|
"sha256": "1g2y7pgpc500vls62xp817n9arsw8dbj3c0d9dbvb1d014gzmbdw",
|
|
"depends": ["BiocParallel", "R_utils", "Rsamtools", "data_table", "doParallel", "foreach", "httr", "jsonlite", "pbapply", "tidyr"]
|
|
},
|
|
"cellity": {
|
|
"name": "cellity",
|
|
"version": "1.32.0",
|
|
"sha256": "0m79q1c2rvv24q593c5vwsh0dsi2ahfwvf9a5pf9r9wnk3am9r3n",
|
|
"depends": ["AnnotationDbi", "e1071", "ggplot2", "mvoutlier", "org_Hs_eg_db", "org_Mm_eg_db", "robustbase", "topGO"]
|
|
},
|
|
"cellmigRation": {
|
|
"name": "cellmigRation",
|
|
"version": "1.12.0",
|
|
"sha256": "0ahml812f6hm05dxnlsd59bfspxbi4py205kvs0wlijygfqd1ajy",
|
|
"depends": ["FME", "FactoMineR", "Hmisc", "SpatialTools", "doParallel", "foreach", "matrixStats", "reshape2", "sp", "tiff", "vioplot"]
|
|
},
|
|
"cellscape": {
|
|
"name": "cellscape",
|
|
"version": "1.28.0",
|
|
"sha256": "158cbhpjakynvm4glvajvpc1qs2im7bkjgriyvxwd9rs7y4lbfn4",
|
|
"depends": ["dplyr", "gtools", "htmlwidgets", "jsonlite", "reshape2", "stringr"]
|
|
},
|
|
"cellxgenedp": {
|
|
"name": "cellxgenedp",
|
|
"version": "1.8.0",
|
|
"sha256": "0p3x0sfp4gpp64gwrlr71bgfk84wxf1gg19w1dxgihc8gpaxgb23",
|
|
"depends": ["DT", "curl", "dplyr", "httr", "rjsoncons", "shiny"]
|
|
},
|
|
"censcyt": {
|
|
"name": "censcyt",
|
|
"version": "1.12.0",
|
|
"sha256": "078s41rvlfwlxr2a651dff5sdbqb507qvicg84k99za6cb4707ry",
|
|
"depends": ["BiocParallel", "MASS", "S4Vectors", "SummarizedExperiment", "broom_mixed", "diffcyt", "dirmult", "dplyr", "edgeR", "fitdistrplus", "lme4", "magrittr", "mice", "multcomp", "purrr", "rlang", "stringr", "survival", "tibble", "tidyr"]
|
|
},
|
|
"cfDNAPro": {
|
|
"name": "cfDNAPro",
|
|
"version": "1.10.0",
|
|
"sha256": "0nnqfhqq7702zc4hy05wj7rf83vgjqmnpvw90vkg4zrbc7y5fv3w",
|
|
"depends": ["BSgenome_Hsapiens_NCBI_GRCh38", "BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Hsapiens_UCSC_hg38", "BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "dplyr", "ggplot2", "magrittr", "plyranges", "quantmod", "rlang", "stringr", "tibble"]
|
|
},
|
|
"cfTools": {
|
|
"name": "cfTools",
|
|
"version": "1.4.0",
|
|
"sha256": "0hi9j7a13l18fi2m4w5x8lil1f81izivg8p8hzh3wy8idbsc46m2",
|
|
"depends": ["BH", "GenomicRanges", "R_utils", "Rcpp", "basilisk", "cfToolsData"]
|
|
},
|
|
"cfdnakit": {
|
|
"name": "cfdnakit",
|
|
"version": "1.2.0",
|
|
"sha256": "1yzhh76r8zlzdg8mpamsr6jvx4j18wkv4dg2mrgclbdmy10dxhwx",
|
|
"depends": ["Biobase", "GenomeInfoDb", "GenomicRanges", "IRanges", "PSCBS", "QDNAseq", "Rsamtools", "S4Vectors", "dplyr", "ggplot2", "magrittr", "rlang"]
|
|
},
|
|
"cghMCR": {
|
|
"name": "cghMCR",
|
|
"version": "1.62.0",
|
|
"sha256": "07pjh4i0j6wd51k7dyig5dg5vcp8bli50my6aibmqdvrjv0wj60w",
|
|
"depends": ["BiocGenerics", "CNTools", "DNAcopy", "limma"]
|
|
},
|
|
"chihaya": {
|
|
"name": "chihaya",
|
|
"version": "1.4.0",
|
|
"sha256": "10j05n9grh9dzb87hiq06x855c2xhi2c09jryc2ixgxd8jx6g2wy",
|
|
"depends": ["DelayedArray", "HDF5Array", "Matrix", "Rcpp", "Rhdf5lib", "rhdf5"]
|
|
},
|
|
"chimeraviz": {
|
|
"name": "chimeraviz",
|
|
"version": "1.30.0",
|
|
"sha256": "1nx258g96v7548a742201jf6yhjf537b6pkmcijhawchnzfn38vn",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BiocStyle", "Biostrings", "DT", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "Gviz", "IRanges", "RCircos", "RColorBrewer", "Rgraphviz", "Rsamtools", "S4Vectors", "checkmate", "data_table", "dplyr", "ensembldb", "graph", "gtools", "magick", "org_Hs_eg_db", "org_Mm_eg_db", "plyr", "rmarkdown"]
|
|
},
|
|
"chipenrich": {
|
|
"name": "chipenrich",
|
|
"version": "2.28.0",
|
|
"sha256": "01sfl3ik12bha3a57gm34y5gnil0akz9f3qfcp9rxsg7zdj8q1mp",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "chipenrich_data", "lattice", "latticeExtra", "mgcv", "org_Dm_eg_db", "org_Dr_eg_db", "org_Hs_eg_db", "org_Mm_eg_db", "org_Rn_eg_db", "plyr", "rms", "rtracklayer", "stringr"]
|
|
},
|
|
"chipseq": {
|
|
"name": "chipseq",
|
|
"version": "1.54.0",
|
|
"sha256": "1rd56knaf0ar8d0nh0mcnrrg5jy0csixig1d4abn1b64vbzrvzpz",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "ShortRead", "lattice"]
|
|
},
|
|
"chopsticks": {
|
|
"name": "chopsticks",
|
|
"version": "1.70.0",
|
|
"sha256": "1lwl3fs7d2cja6n7wgpxvrplhnblabrrpqk83765aksmrk6sfk81",
|
|
"depends": ["survival"]
|
|
},
|
|
"chromDraw": {
|
|
"name": "chromDraw",
|
|
"version": "2.34.0",
|
|
"sha256": "1r733k8hkdhvapbwbp02ias1fjkr0pxi6m7gk2l9q3m6szydpil8",
|
|
"depends": ["GenomicRanges", "Rcpp"]
|
|
},
|
|
"chromPlot": {
|
|
"name": "chromPlot",
|
|
"version": "1.32.0",
|
|
"sha256": "187w8qm0kf8297yb5yzkd5rxzx6j03hysgpdm41dc247q50nv046",
|
|
"depends": ["GenomicRanges", "biomaRt"]
|
|
},
|
|
"chromVAR": {
|
|
"name": "chromVAR",
|
|
"version": "1.26.0",
|
|
"sha256": "092y1x1sbqvjrwmr7sv2r5216wbwwc4lk6kwn57fnvvdnc0hc3sv",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "DT", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "RColorBrewer", "Rcpp", "RcppArmadillo", "Rsamtools", "Rtsne", "S4Vectors", "SummarizedExperiment", "TFBSTools", "ggplot2", "miniUI", "nabor", "plotly", "shiny"]
|
|
},
|
|
"chromstaR": {
|
|
"name": "chromstaR",
|
|
"version": "1.30.0",
|
|
"sha256": "0swkjq50p3ak0ddyg7pqg37fivdpr3v5jpakn38sk5i5ycn3qf3g",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "bamsignals", "chromstaRData", "doParallel", "foreach", "ggplot2", "mvtnorm", "reshape2"]
|
|
},
|
|
"cicero": {
|
|
"name": "cicero",
|
|
"version": "1.22.0",
|
|
"sha256": "0x5ly5hkqli5b67hiaa6ha02damyps7vb4l51p0az1j5fxl39n8r",
|
|
"depends": ["Biobase", "BiocGenerics", "FNN", "GenomicRanges", "Gviz", "IRanges", "Matrix", "S4Vectors", "VGAM", "assertthat", "data_table", "dplyr", "ggplot2", "glasso", "igraph", "monocle", "plyr", "reshape2", "stringi", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"circRNAprofiler": {
|
|
"name": "circRNAprofiler",
|
|
"version": "1.18.0",
|
|
"sha256": "0gjnx4645kd7qag7dzs5dp9lhsv6zg5xn6jna3bap4mginl1jvxi",
|
|
"depends": ["AnnotationHub", "BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "Biostrings", "DESeq2", "GenomeInfoDb", "GenomicRanges", "IRanges", "R_utils", "S4Vectors", "dplyr", "edgeR", "ggplot2", "gwascat", "magrittr", "readr", "reshape2", "rlang", "rtracklayer", "seqinr", "stringi", "stringr", "universalmotif"]
|
|
},
|
|
"cisPath": {
|
|
"name": "cisPath",
|
|
"version": "1.44.0",
|
|
"sha256": "1r1h5sklm6n9spxgj9rww2ib1f75lyz657awdm5ig3sdsk8f1lpn",
|
|
"depends": []
|
|
},
|
|
"cleanUpdTSeq": {
|
|
"name": "cleanUpdTSeq",
|
|
"version": "1.42.0",
|
|
"sha256": "0fc7lwglp9asssh7yvrqr3wrgdcdapi5zh0fkqmddc1w1n83053r",
|
|
"depends": ["BSgenome", "BSgenome_Drerio_UCSC_danRer7", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "e1071", "seqinr", "stringr"]
|
|
},
|
|
"cleaver": {
|
|
"name": "cleaver",
|
|
"version": "1.42.0",
|
|
"sha256": "15v5jk916lfxjnkmjkm9fgza2pdr02hzgyzny29mkjd6ycj2xfa6",
|
|
"depends": ["Biostrings", "IRanges", "S4Vectors"]
|
|
},
|
|
"clevRvis": {
|
|
"name": "clevRvis",
|
|
"version": "1.4.0",
|
|
"sha256": "08qmhyhd9z5cpgkccz8jbk81ni51xd4rkv18clzwfk85vbkmjywn",
|
|
"depends": ["DT", "R_utils", "colorspace", "colourpicker", "cowplot", "dplyr", "ggiraph", "ggnewscale", "ggplot2", "ggraph", "htmlwidgets", "igraph", "magrittr", "patchwork", "purrr", "readr", "readxl", "shiny", "shinyWidgets", "shinycssloaders", "shinydashboard", "shinyhelper", "tibble"]
|
|
},
|
|
"cliProfiler": {
|
|
"name": "cliProfiler",
|
|
"version": "1.10.0",
|
|
"sha256": "10ikijimbhwijlq19xc8x730ihix19c5z15mq138jj9p85zrqcin",
|
|
"depends": ["BSgenome", "Biostrings", "GenomicRanges", "S4Vectors", "dplyr", "ggplot2", "rtracklayer"]
|
|
},
|
|
"clippda": {
|
|
"name": "clippda",
|
|
"version": "1.54.0",
|
|
"sha256": "1pfzshvrhqjazmzhznwn1ml8lgrfhwmb6q285bbs3vksgjqyxczw",
|
|
"depends": ["Biobase", "lattice", "limma", "rgl", "scatterplot3d", "statmod"]
|
|
},
|
|
"clipper": {
|
|
"name": "clipper",
|
|
"version": "1.44.0",
|
|
"sha256": "1jaf3xsl37jpwpiq9r3w13fa069jmq6b6j2inmfzdy7jx8vbfm0k",
|
|
"depends": ["Biobase", "KEGGgraph", "Matrix", "Rcpp", "corpcor", "gRbase", "graph", "igraph", "qpgraph"]
|
|
},
|
|
"cliqueMS": {
|
|
"name": "cliqueMS",
|
|
"version": "1.18.1",
|
|
"sha256": "1k51j9q2s8065sxb04ywdh6kwh1y6w4kslk9iww9vmq0p1dwsdb7",
|
|
"depends": ["BH", "MSnbase", "Rcpp", "RcppArmadillo", "coop", "igraph", "matrixStats", "slam", "xcms"]
|
|
},
|
|
"clst": {
|
|
"name": "clst",
|
|
"version": "1.52.0",
|
|
"sha256": "0ng8zmqrnjpavl7mz4sh0qfa3bvxd12vh1568f9brm80avypp02j",
|
|
"depends": ["ROC", "lattice"]
|
|
},
|
|
"clstutils": {
|
|
"name": "clstutils",
|
|
"version": "1.52.0",
|
|
"sha256": "0ry1b3gq2mbdir84pipk8z0dkf0g1mph9yflx3snjdc4izgviasx",
|
|
"depends": ["RSQLite", "ape", "clst", "lattice", "rjson"]
|
|
},
|
|
"clustComp": {
|
|
"name": "clustComp",
|
|
"version": "1.32.0",
|
|
"sha256": "0dv55dhljb05jk0bqc72f0chkzmlf64wilfxfyric9gb9ksi49kq",
|
|
"depends": ["sm"]
|
|
},
|
|
"clusterExperiment": {
|
|
"name": "clusterExperiment",
|
|
"version": "2.24.0",
|
|
"sha256": "0pi6qnchh89fhfr50fk4hrrkz1r8gfwjcd7254pgiaxcazv2380a",
|
|
"depends": ["BiocGenerics", "BiocSingular", "DelayedArray", "HDF5Array", "Matrix", "NMF", "RColorBrewer", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ape", "cluster", "edgeR", "kernlab", "limma", "locfdr", "matrixStats", "mbkmeans", "phylobase", "pracma", "scales", "stringr", "zinbwave"]
|
|
},
|
|
"clusterProfiler": {
|
|
"name": "clusterProfiler",
|
|
"version": "4.12.3",
|
|
"sha256": "1lcgbhrs32cdkph11p3xrhy5ic5d52zfajddvynqnzc9zhxmbgcf",
|
|
"depends": ["AnnotationDbi", "DOSE", "GOSemSim", "GO_db", "downloader", "dplyr", "enrichplot", "gson", "httr", "igraph", "magrittr", "plyr", "qvalue", "rlang", "tidyr", "yulab_utils"]
|
|
},
|
|
"clusterSeq": {
|
|
"name": "clusterSeq",
|
|
"version": "1.28.0",
|
|
"sha256": "0spf8kv15dchr852apzmwpq27a7gflxvah0yrdyaq7kgqv3107l9",
|
|
"depends": ["BiocGenerics", "BiocParallel", "baySeq"]
|
|
},
|
|
"clusterStab": {
|
|
"name": "clusterStab",
|
|
"version": "1.76.0",
|
|
"sha256": "193lwy85202hd5fiqmwi9sd9vcbvm3zlg4grm0xvvaj2np0b3svi",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"clustifyr": {
|
|
"name": "clustifyr",
|
|
"version": "1.16.0",
|
|
"sha256": "14c7jr4q0zij2zqpcm6jihy0ch80yfp67lvhxiakcg33xq1jvmzv",
|
|
"depends": ["Matrix", "S4Vectors", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "cowplot", "dplyr", "entropy", "fgsea", "ggplot2", "httr", "matrixStats", "proxy", "rlang", "scales", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"cmapR": {
|
|
"name": "cmapR",
|
|
"version": "1.16.0",
|
|
"sha256": "0gj0s6l7r5dln7h9z5y03bjxj3w73cy4x83ik1cp5nmffabypzm9",
|
|
"depends": ["SummarizedExperiment", "data_table", "flowCore", "matrixStats", "rhdf5"]
|
|
},
|
|
"cn_farms": {
|
|
"name": "cn.farms",
|
|
"version": "1.52.0",
|
|
"sha256": "098p6bhibg14ahx2gn2jbqaf537w00428a8mqvzghy9519pwmsqd",
|
|
"depends": ["Biobase", "DBI", "DNAcopy", "affxparser", "ff", "lattice", "oligo", "oligoClasses", "preprocessCore", "snow"]
|
|
},
|
|
"cn_mops": {
|
|
"name": "cn.mops",
|
|
"version": "1.50.0",
|
|
"sha256": "1zf2j36g97i7ija5h2pchlvh24h2s8k3nl9k9iwlh2jxax3hnr97",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors"]
|
|
},
|
|
"cnvGSA": {
|
|
"name": "cnvGSA",
|
|
"version": "1.48.0",
|
|
"sha256": "1njb31i1fsvisgjjczjbc9qb7w6bz8dh4856gghkb4f9gscn06rk",
|
|
"depends": ["GenomicRanges", "brglm", "doParallel", "foreach", "splitstackshape"]
|
|
},
|
|
"coGPS": {
|
|
"name": "coGPS",
|
|
"version": "1.48.0",
|
|
"sha256": "07skpib02914bak5zz5rlwp61kkls9pl83yc5d5kalsqpa1sb63m",
|
|
"depends": []
|
|
},
|
|
"coMethDMR": {
|
|
"name": "coMethDMR",
|
|
"version": "1.8.0",
|
|
"sha256": "1a0f0r11jdcf47b9nzswi9j1axhibij09lava57cv48a23hzrj6z",
|
|
"depends": ["AnnotationHub", "BiocParallel", "ExperimentHub", "GenomicRanges", "IRanges", "bumphunter", "lmerTest"]
|
|
},
|
|
"coRdon": {
|
|
"name": "coRdon",
|
|
"version": "1.22.0",
|
|
"sha256": "0zspxfivvc87s3mnyr8rz3a0dhjsmksvpjn4wba2zqc9hig0pkw6",
|
|
"depends": ["Biobase", "Biostrings", "data_table", "dplyr", "ggplot2", "purrr", "stringr"]
|
|
},
|
|
"codelink": {
|
|
"name": "codelink",
|
|
"version": "1.72.0",
|
|
"sha256": "0maag5ns0j2c7l4pnrgb724108fmp4a2xj8nffk1kw4ag39k9xqc",
|
|
"depends": ["Biobase", "BiocGenerics", "annotate", "limma"]
|
|
},
|
|
"cogena": {
|
|
"name": "cogena",
|
|
"version": "1.38.0",
|
|
"sha256": "0w41i4mvv085pvm0ars31qy0m6alb96kni3k6lcsikqch9nqiv3z",
|
|
"depends": ["Biobase", "amap", "apcluster", "biwt", "class", "cluster", "corrplot", "devtools", "doParallel", "dplyr", "fastcluster", "foreach", "ggplot2", "gplots", "kohonen", "mclust", "reshape2", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"cogeqc": {
|
|
"name": "cogeqc",
|
|
"version": "1.8.0",
|
|
"sha256": "056zj1hlfvzdj22p79nd567fpzlmmk12nyy1w41ymhwfy9azdhha",
|
|
"depends": ["Biostrings", "ggbeeswarm", "ggplot2", "ggtree", "igraph", "jsonlite", "patchwork", "reshape2", "rlang", "scales"]
|
|
},
|
|
"cola": {
|
|
"name": "cola",
|
|
"version": "2.10.0",
|
|
"sha256": "014yx4r5as34f6g1xf4amqwkq0xqa66rv8g45r4cd4fp4dv9szzg",
|
|
"depends": ["BiocGenerics", "ComplexHeatmap", "GetoptLong", "GlobalOptions", "RColorBrewer", "Rcpp", "brew", "circlize", "clue", "cluster", "crayon", "digest", "doParallel", "doRNG", "eulerr", "foreach", "httr", "impute", "irlba", "knitr", "markdown", "matrixStats", "mclust", "microbenchmark", "png", "skmeans", "xml2"]
|
|
},
|
|
"comapr": {
|
|
"name": "comapr",
|
|
"version": "1.8.0",
|
|
"sha256": "007r7q7p97w5rh8pvgrajlyv09m6h9q8zs0mb8xs1qw3jlkac5z4",
|
|
"depends": ["BiocParallel", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "Matrix", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "circlize", "dplyr", "foreach", "ggplot2", "gridExtra", "plotly", "plyr", "reshape2", "rlang", "scales", "tidyr"]
|
|
},
|
|
"combi": {
|
|
"name": "combi",
|
|
"version": "1.16.0",
|
|
"sha256": "1s6nxigvmxq5c2y347k87by0krda63lwynvbgagvg9h2lhb588kv",
|
|
"depends": ["BB", "Biobase", "DBI", "Matrix", "SummarizedExperiment", "alabama", "cobs", "ggplot2", "limma", "nleqslv", "phyloseq", "reshape2", "tensor", "vegan"]
|
|
},
|
|
"compEpiTools": {
|
|
"name": "compEpiTools",
|
|
"version": "1.38.0",
|
|
"sha256": "04yhfihszw5s61195435cczk801rb8n29zrh8rqknf0rdyccxb2q",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Biostrings", "GO_db", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "XVector", "gplots", "methylPipe", "topGO"]
|
|
},
|
|
"compSPOT": {
|
|
"name": "compSPOT",
|
|
"version": "1.2.0",
|
|
"sha256": "1gai411y4dcc2ip73wjb56az8kjh0d34z3xij7hdhs72qg4k6955",
|
|
"depends": ["data_table", "ggplot2", "ggpubr", "gridExtra", "magrittr", "plotly"]
|
|
},
|
|
"compcodeR": {
|
|
"name": "compcodeR",
|
|
"version": "1.40.0",
|
|
"sha256": "0szixwgk85qpyag2i8spn0shpl8r6j5xjg90js3rgrx1b8saaqbm",
|
|
"depends": ["KernSmooth", "MASS", "ROCR", "ape", "caTools", "edgeR", "ggplot2", "gplots", "gtools", "knitr", "lattice", "limma", "markdown", "matrixStats", "modeest", "phylolm", "rmarkdown", "shiny", "shinydashboard", "sm", "stringr", "vioplot"]
|
|
},
|
|
"concordexR": {
|
|
"name": "concordexR",
|
|
"version": "1.4.0",
|
|
"sha256": "0z8h4gr8lj6kpffi1zha4683ha46n5nrlc3yvyrwbf2gflzvdf3y",
|
|
"depends": ["BiocParallel", "DelayedArray", "Matrix", "cli", "ggplot2", "pheatmap", "rlang", "scales"]
|
|
},
|
|
"condiments": {
|
|
"name": "condiments",
|
|
"version": "1.12.0",
|
|
"sha256": "0wifi5npnzmwdvh6g2xa998ccl902jka1mfs4xxgrpdbc0rxny8r",
|
|
"depends": ["BiocParallel", "Ecume", "RANN", "SingleCellExperiment", "SummarizedExperiment", "TrajectoryUtils", "distinct", "dplyr", "igraph", "magrittr", "matrixStats", "mgcv", "pbapply", "slingshot"]
|
|
},
|
|
"consICA": {
|
|
"name": "consICA",
|
|
"version": "2.2.0",
|
|
"sha256": "061v9v4gpxxmb5yn6dhh1r2x52y3ik68v1y59sfaazhlp3kg970x",
|
|
"depends": ["BiocParallel", "GO_db", "Rfast", "SummarizedExperiment", "fastICA", "ggplot2", "graph", "org_Hs_eg_db", "pheatmap", "sm", "survival", "topGO"]
|
|
},
|
|
"consensus": {
|
|
"name": "consensus",
|
|
"version": "1.22.0",
|
|
"sha256": "09g6qmvalbnyskvv6zb49h3ph4xv3rz71y6gdfayh5jmh82nw9fd",
|
|
"depends": ["RColorBrewer", "gplots", "matrixStats"]
|
|
},
|
|
"consensusDE": {
|
|
"name": "consensusDE",
|
|
"version": "1.22.0",
|
|
"sha256": "051rcanakn1kmlybhc57cp80rxdgvpd0grldsw014ss8s938nz8z",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DESeq2", "EDASeq", "EnsDb_Hsapiens_v86", "GenomicAlignments", "GenomicFeatures", "RColorBrewer", "RUVSeq", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TxDb_Dmelanogaster_UCSC_dm3_ensGene", "airway", "data_table", "dendextend", "edgeR", "ensembldb", "limma", "org_Hs_eg_db", "pcaMethods"]
|
|
},
|
|
"consensusOV": {
|
|
"name": "consensusOV",
|
|
"version": "1.26.0",
|
|
"sha256": "0a2qrjid6a5yndkhd47km40qv2c3321xypr5mwlwsq5qp48x7vvq",
|
|
"depends": ["Biobase", "BiocParallel", "GSVA", "gdata", "genefu", "limma", "matrixStats", "randomForest"]
|
|
},
|
|
"consensusSeekeR": {
|
|
"name": "consensusSeekeR",
|
|
"version": "1.32.0",
|
|
"sha256": "0da6k6i372iqh1gnd4g6ifg75hkx2rrlp2bpwf1ai3g31n8ashiw",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "rtracklayer", "stringr"]
|
|
},
|
|
"conumee": {
|
|
"name": "conumee",
|
|
"version": "1.38.0",
|
|
"sha256": "0ys8z4xgnmbg4dq81mr59imbz3p9j5ymi9y1dk030xrdh5iwi0am",
|
|
"depends": ["DNAcopy", "GenomeInfoDb", "GenomicRanges", "IRanges", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylation450kmanifest", "IlluminaHumanMethylationEPICanno_ilm10b2_hg19", "IlluminaHumanMethylationEPICmanifest", "minfi", "rtracklayer"]
|
|
},
|
|
"convert": {
|
|
"name": "convert",
|
|
"version": "1.80.0",
|
|
"sha256": "0i4gdd4vhbhkhzij85w4891p9fnqkchxcdqwqqs76ipg1vgrf98v",
|
|
"depends": ["Biobase", "limma", "marray"]
|
|
},
|
|
"copa": {
|
|
"name": "copa",
|
|
"version": "1.72.0",
|
|
"sha256": "1v8xz09ylcja9d4gq3icm6y8k8jkavicnj22iidjnj0c2r03jwg6",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"corral": {
|
|
"name": "corral",
|
|
"version": "1.14.0",
|
|
"sha256": "14zf8ya8yrr2bbxg8iiwxn3l7qvii0bmiwwdmypgv1qi32hx9ckp",
|
|
"depends": ["Matrix", "MultiAssayExperiment", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "ggthemes", "gridExtra", "irlba", "pals", "reshape2", "transport"]
|
|
},
|
|
"coseq": {
|
|
"name": "coseq",
|
|
"version": "1.28.0",
|
|
"sha256": "0g24q3wb15qnj3igbj93k0rlw1s6ylgzhi8106qfmpybnq3rcry5",
|
|
"depends": ["BiocParallel", "DESeq2", "HTSCluster", "HTSFilter", "Rmixmod", "S4Vectors", "SummarizedExperiment", "capushe", "compositions", "corrplot", "e1071", "edgeR", "ggplot2", "mvtnorm", "scales"]
|
|
},
|
|
"cosmiq": {
|
|
"name": "cosmiq",
|
|
"version": "1.38.0",
|
|
"sha256": "0rvayjwg9f3ns8mv657sww9azjjbavxfxcshazn48j7rvr4bqx8z",
|
|
"depends": ["MassSpecWavelet", "Rcpp", "faahKO", "pracma", "xcms"]
|
|
},
|
|
"cosmosR": {
|
|
"name": "cosmosR",
|
|
"version": "1.12.0",
|
|
"sha256": "0rpy6dysf5p892dcad4z45i607km23pah4iq448g5mbzypsjkqsw",
|
|
"depends": ["CARNIVAL", "GSEABase", "decoupleR", "dorothea", "dplyr", "igraph", "progress", "purrr", "rlang", "stringr", "visNetwork"]
|
|
},
|
|
"countsimQC": {
|
|
"name": "countsimQC",
|
|
"version": "1.22.0",
|
|
"sha256": "0zrxi7zvdiv1xx3hiy15a3wjgqvywikixx8lq3qx85dw2kz3nfpf",
|
|
"depends": ["DESeq2", "DT", "GenomeInfoDbData", "SummarizedExperiment", "caTools", "dplyr", "edgeR", "genefilter", "ggplot2", "ragg", "randtests", "rmarkdown", "tidyr"]
|
|
},
|
|
"covEB": {
|
|
"name": "covEB",
|
|
"version": "1.30.0",
|
|
"sha256": "15yz54dhjwz6iafmvq33l43z3w887a6b7i150rqi23rzs9mabixa",
|
|
"depends": ["Biobase", "LaplacesDemon", "Matrix", "gsl", "igraph", "mvtnorm"]
|
|
},
|
|
"covRNA": {
|
|
"name": "covRNA",
|
|
"version": "1.30.0",
|
|
"sha256": "12j69j73fkfn3s20jcyixp71a5j37m405962mxa2pihlqsrh7sxl",
|
|
"depends": ["Biobase", "ade4", "genefilter"]
|
|
},
|
|
"cpvSNP": {
|
|
"name": "cpvSNP",
|
|
"version": "1.36.0",
|
|
"sha256": "0kn65jzx9cif1w3hqyfjkxdcpnlk9b8msv3rk0ahdsln1d0mnyw6",
|
|
"depends": ["BiocParallel", "GSEABase", "GenomicFeatures", "corpcor", "ggplot2", "plyr"]
|
|
},
|
|
"cqn": {
|
|
"name": "cqn",
|
|
"version": "1.50.0",
|
|
"sha256": "1gjfpz696lpvbbm38ni8b8xxkjik6zb4drhc5gd559ccp3ddy8kn",
|
|
"depends": ["mclust", "nor1mix", "preprocessCore", "quantreg"]
|
|
},
|
|
"crisprBase": {
|
|
"name": "crisprBase",
|
|
"version": "1.8.0",
|
|
"sha256": "1zw4syj12agcvjzjn3ffsd50vffsdgya7yfz62dy73wj4m2l2whq",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "IRanges", "S4Vectors", "stringr"]
|
|
},
|
|
"crisprBowtie": {
|
|
"name": "crisprBowtie",
|
|
"version": "1.8.0",
|
|
"sha256": "0fyihnmrl92nl1r85axz9bck6l9clvc5a6px0214i064w8dn1njj",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rbowtie", "crisprBase", "readr", "stringr"]
|
|
},
|
|
"crisprBwa": {
|
|
"name": "crisprBwa",
|
|
"version": "1.8.0",
|
|
"sha256": "1vz99b632fzxdlpw5n2z2mbx7sb9hng58np1ra7gqc2wypk0sa8x",
|
|
"depends": ["BSgenome", "BiocGenerics", "GenomeInfoDb", "Rbwa", "crisprBase", "readr", "stringr"]
|
|
},
|
|
"crisprDesign": {
|
|
"name": "crisprDesign",
|
|
"version": "1.6.0",
|
|
"sha256": "1zv8cc52r13b47r44qph892fhbgy1xp8xz4xf1hfyqgd7ywcl9kb",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "MatrixGenerics", "S4Vectors", "VariantAnnotation", "crisprBase", "crisprBowtie", "crisprScore", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"crisprScore": {
|
|
"name": "crisprScore",
|
|
"version": "1.8.0",
|
|
"sha256": "1czg5l4bvi5j3afip74qgl1kqgcllb5s1gz6sy7qk1cbf1fmvril",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "XVector", "basilisk", "basilisk_utils", "crisprScoreData", "randomForest", "reticulate", "stringr"]
|
|
},
|
|
"crisprShiny": {
|
|
"name": "crisprShiny",
|
|
"version": "1.0.0",
|
|
"sha256": "0fmp0gi70cv3g4c00l6g58kww9cg9rvpkhg8lsii9j8p8fj6hsjd",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "DT", "GenomeInfoDb", "S4Vectors", "crisprBase", "crisprDesign", "crisprScore", "crisprViz", "htmlwidgets", "pwalign", "shiny", "shinyBS", "shinyjs", "waiter"]
|
|
},
|
|
"crisprVerse": {
|
|
"name": "crisprVerse",
|
|
"version": "1.6.0",
|
|
"sha256": "0f81bf65xz5z5yj9iyyk3h8asyd5hg3hv3157w0kq4ablz8jr7iq",
|
|
"depends": ["BiocManager", "cli", "crisprBase", "crisprBowtie", "crisprDesign", "crisprScore", "crisprScoreData", "crisprViz", "rlang"]
|
|
},
|
|
"crisprViz": {
|
|
"name": "crisprViz",
|
|
"version": "1.6.0",
|
|
"sha256": "1bbawsmah9h12kxwcq97q1mjbkniivfafm95k299bb93baqillih",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "S4Vectors", "crisprBase", "crisprDesign", "txdbmaker"]
|
|
},
|
|
"crlmm": {
|
|
"name": "crlmm",
|
|
"version": "1.62.0",
|
|
"sha256": "0b0zwawxm07iy5g9z17057dsifrwyyl5rkgn09k7vh8rkfxbdydx",
|
|
"depends": ["Biobase", "BiocGenerics", "RcppEigen", "VGAM", "affyio", "beanplot", "ellipse", "ff", "foreach", "illuminaio", "lattice", "limma", "matrixStats", "mvtnorm", "oligoClasses", "preprocessCore"]
|
|
},
|
|
"crossmeta": {
|
|
"name": "crossmeta",
|
|
"version": "1.30.0",
|
|
"sha256": "1ghgfby1rl3phldyipli550f0i289yanb0v4nzn5l1xnpkxaj6fa",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocManager", "DBI", "DT", "GEOquery", "RCurl", "RSQLite", "XML", "affxparser", "affy", "data_table", "edgeR", "fdrtool", "limma", "matrixStats", "metaMA", "miniUI", "oligo", "reader", "readxl", "shiny", "shinyBS", "shinyWidgets", "shinyjs", "shinypanel", "stringr", "sva", "tibble"]
|
|
},
|
|
"csaw": {
|
|
"name": "csaw",
|
|
"version": "1.38.0",
|
|
"sha256": "0a870z480an3wwbp6z4qy034kvk6bvrydgk2if7x4q9k3qvknsz0",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "Rhtslib", "Rsamtools", "S4Vectors", "SummarizedExperiment", "edgeR", "limma", "metapod", "zlibbioc"]
|
|
},
|
|
"csdR": {
|
|
"name": "csdR",
|
|
"version": "1.10.0",
|
|
"sha256": "13g6rq95888l4ach0yrw6nrfvyxnw3b5ni01v875gfk5jl9jcllv",
|
|
"depends": ["Rcpp", "RhpcBLASctl", "WGCNA", "glue", "matrixStats"]
|
|
},
|
|
"ctc": {
|
|
"name": "ctc",
|
|
"version": "1.78.0",
|
|
"sha256": "09whaam2r30dq8y9r6vvc0r4sisz78c921bgx7wj6cmn2nvpgf9q",
|
|
"depends": ["amap"]
|
|
},
|
|
"ctsGE": {
|
|
"name": "ctsGE",
|
|
"version": "1.30.0",
|
|
"sha256": "1pqww9r71zjq4qcssffs94q2fx177jlv9n6vkm3qm9j943r1cy58",
|
|
"depends": ["ccaPP", "ggplot2", "limma", "reshape2", "shiny", "stringr"]
|
|
},
|
|
"cummeRbund": {
|
|
"name": "cummeRbund",
|
|
"version": "2.46.0",
|
|
"sha256": "0hdm2214waz02ybr264xis48kj2anpad80jk640p49v9r17iia9l",
|
|
"depends": ["Biobase", "BiocGenerics", "Gviz", "RSQLite", "S4Vectors", "fastcluster", "ggplot2", "plyr", "reshape2", "rtracklayer"]
|
|
},
|
|
"customCMPdb": {
|
|
"name": "customCMPdb",
|
|
"version": "1.14.0",
|
|
"sha256": "1j56542mp1gimnbbakbilkmb59jngvx8w47ycnaj8c1j1yhar9ll",
|
|
"depends": ["AnnotationHub", "BiocFileCache", "ChemmineR", "RSQLite", "XML", "rappdirs"]
|
|
},
|
|
"customProDB": {
|
|
"name": "customProDB",
|
|
"version": "1.44.0",
|
|
"sha256": "1pxn9nq84h9xgn2g0jzigbw7pbv4sjvf4jkzalp7l3yjax5llq3i",
|
|
"depends": ["AhoCorasickTrie", "AnnotationDbi", "Biostrings", "DBI", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RCurl", "RSQLite", "Rsamtools", "S4Vectors", "VariantAnnotation", "biomaRt", "plyr", "rtracklayer", "stringr", "txdbmaker"]
|
|
},
|
|
"cyanoFilter": {
|
|
"name": "cyanoFilter",
|
|
"version": "1.12.0",
|
|
"sha256": "1nymq5qiw5s2nfa67mccv0jn6gxy5y6sx483cw87j5pbmvg579rx",
|
|
"depends": ["Biobase", "GGally", "cytometree", "flowClust", "flowCore", "flowDensity", "ggplot2", "mrfDepth"]
|
|
},
|
|
"cycle": {
|
|
"name": "cycle",
|
|
"version": "1.58.0",
|
|
"sha256": "0jhjjnxyx5byjdf7rh1ci1gdf8djgi4ksm17rrrrnwyrcg6y3dyb",
|
|
"depends": ["Biobase", "Mfuzz"]
|
|
},
|
|
"cydar": {
|
|
"name": "cydar",
|
|
"version": "1.28.0",
|
|
"sha256": "16lr3sry647wns2ycv3b604fmsma3a944g85c4ik7xk7ij1ady47",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocNeighbors", "BiocParallel", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "flowCore", "shiny", "viridis"]
|
|
},
|
|
"cypress": {
|
|
"name": "cypress",
|
|
"version": "1.0.0",
|
|
"sha256": "0dyywkg41ihff6f2f6p7854qkgx3lav1rviicrik2nlxg4scl034",
|
|
"depends": ["BiocParallel", "DESeq2", "MASS", "PROPER", "RColorBrewer", "SummarizedExperiment", "TCA", "TOAST", "abind", "checkmate", "dplyr", "e1071", "edgeR", "mvtnorm", "preprocessCore", "rlang", "sirt", "tibble"]
|
|
},
|
|
"cytoKernel": {
|
|
"name": "cytoKernel",
|
|
"version": "1.10.0",
|
|
"sha256": "0pzcsxshc60myzhq57gxyzrfd590ggydj2nq0byca7vyzxc6z3y6",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "Rcpp", "S4Vectors", "SummarizedExperiment", "ashr", "circlize", "data_table", "dplyr", "magrittr", "rlang"]
|
|
},
|
|
"cytoMEM": {
|
|
"name": "cytoMEM",
|
|
"version": "1.8.0",
|
|
"sha256": "1dxam2ycwpjmk4z3jgz90swach8k2skjsq4nlh2hj694iqs4f6zj",
|
|
"depends": ["flowCore", "gplots", "matrixStats"]
|
|
},
|
|
"cytofQC": {
|
|
"name": "cytofQC",
|
|
"version": "1.4.0",
|
|
"sha256": "1gn383vchgxs62z9p5h7b0wnakwmwclsk46px6ah1cagykrfgas3",
|
|
"depends": ["CATALYST", "EZtune", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "e1071", "flowCore", "gbm", "ggplot2", "hrbrthemes", "matrixStats", "randomForest", "rmarkdown", "ssc"]
|
|
},
|
|
"cytolib": {
|
|
"name": "cytolib",
|
|
"version": "2.16.0",
|
|
"sha256": "0nrj892jihi4fv58si3il42s0vyz3gm4gmb65kidkky63gmsy6iq",
|
|
"depends": ["BH", "RProtoBufLib", "Rhdf5lib"]
|
|
},
|
|
"cytomapper": {
|
|
"name": "cytomapper",
|
|
"version": "1.16.0",
|
|
"sha256": "1njdhhnzy639v4w07wvgj2gygsipzkfzhbrw63fvxfpf4r1xjzix",
|
|
"depends": ["BiocParallel", "DelayedArray", "EBImage", "HDF5Array", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "ggbeeswarm", "ggplot2", "matrixStats", "nnls", "raster", "rhdf5", "shiny", "shinydashboard", "svgPanZoom", "svglite", "viridis"]
|
|
},
|
|
"cytoviewer": {
|
|
"name": "cytoviewer",
|
|
"version": "1.4.0",
|
|
"sha256": "0s7jnr3z7p6v6x17a9a6cv9vbqgfk8snamcw8qkjpfd613gwk43r",
|
|
"depends": ["EBImage", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "archive", "colourpicker", "cytomapper", "shiny", "shinycssloaders", "shinydashboard", "svgPanZoom", "svglite", "viridis"]
|
|
},
|
|
"dStruct": {
|
|
"name": "dStruct",
|
|
"version": "1.10.0",
|
|
"sha256": "144hyris6fsbs28pz4643njnpjfb0n9w6pm220q5hid4zvhn7dh7",
|
|
"depends": ["IRanges", "S4Vectors", "ggplot2", "purrr", "reshape2", "rlang", "zoo"]
|
|
},
|
|
"daMA": {
|
|
"name": "daMA",
|
|
"version": "1.76.0",
|
|
"sha256": "1hv43r6rymp09fl7vgr8jf6naixkrgl282ggf6nva0jxf1jnfmb3",
|
|
"depends": ["MASS"]
|
|
},
|
|
"dada2": {
|
|
"name": "dada2",
|
|
"version": "1.32.0",
|
|
"sha256": "1ac0nb5bcmzmqpi3vjdmns6xqq3ar61dks6qb3c0k48c78w88b7b",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "Rcpp", "RcppParallel", "ShortRead", "XVector", "ggplot2", "reshape2"]
|
|
},
|
|
"dagLogo": {
|
|
"name": "dagLogo",
|
|
"version": "1.42.0",
|
|
"sha256": "1qaa63ymsirwdvy9z82c81kknhqcpip7bry4b9d8xan48m5f63xl",
|
|
"depends": ["BiocGenerics", "Biostrings", "UniProt_ws", "biomaRt", "httr", "motifStack", "pheatmap"]
|
|
},
|
|
"dar": {
|
|
"name": "dar",
|
|
"version": "1.0.0",
|
|
"sha256": "0l5hjx86n34k3b4cdlndl5gh62f3jxps1iq2ir3fzacpxqsimkjw",
|
|
"depends": ["ComplexHeatmap", "UpSetR", "cli", "crayon", "dplyr", "generics", "ggplot2", "glue", "gplots", "heatmaply", "magrittr", "mia", "phyloseq", "purrr", "readr", "rlang", "scales", "stringr", "tibble", "tidyr", "waldo"]
|
|
},
|
|
"dcGSA": {
|
|
"name": "dcGSA",
|
|
"version": "1.32.0",
|
|
"sha256": "0203pdlv1f9s4zyh6hn2jls6b1pc8rzagrdyvsg50dk187qfvjja",
|
|
"depends": ["BiocParallel", "Matrix"]
|
|
},
|
|
"dcanr": {
|
|
"name": "dcanr",
|
|
"version": "1.20.0",
|
|
"sha256": "15way811xnlhb3qafvfibvqsvx72h8hr0jbwxvqd2dzc2gmkq2ib",
|
|
"depends": ["Matrix", "RColorBrewer", "circlize", "doRNG", "foreach", "igraph", "plyr", "reshape2", "stringr"]
|
|
},
|
|
"dce": {
|
|
"name": "dce",
|
|
"version": "1.12.0",
|
|
"sha256": "1fxcbf21i8k5zydv4qqm41pm3lawkc66ic2rxhlgiwlh7c49awam",
|
|
"depends": ["MASS", "Matrix", "Rgraphviz", "assertthat", "dplyr", "edgeR", "epiNEM", "expm", "ggplot2", "ggraph", "glm2", "glue", "graph", "graphite", "harmonicmeanp", "igraph", "logger", "magrittr", "metap", "mnem", "naturalsort", "org_Hs_eg_db", "pcalg", "ppcor", "purrr", "reshape2", "rlang", "shadowtext", "tidygraph", "tidyverse"]
|
|
},
|
|
"ddCt": {
|
|
"name": "ddCt",
|
|
"version": "1.60.0",
|
|
"sha256": "1q2j80wn5x0lkhpd0krsnw99rrn3kqn09d8xdi778cmvsgqxpahg",
|
|
"depends": ["Biobase", "BiocGenerics", "RColorBrewer", "lattice", "xtable"]
|
|
},
|
|
"ddPCRclust": {
|
|
"name": "ddPCRclust",
|
|
"version": "1.24.0",
|
|
"sha256": "0nmnhykwzbyf2y9i3fi5hgwvc7m7bcikyr3c3nxyaw95f8cc52dp",
|
|
"depends": ["R_utils", "SamSPECTRAL", "clue", "flowCore", "flowDensity", "flowPeaks", "ggplot2", "openxlsx", "plotrix"]
|
|
},
|
|
"dearseq": {
|
|
"name": "dearseq",
|
|
"version": "1.16.0",
|
|
"sha256": "0hy8cnqyvp2mrhj5wi1shh1cba79c5z8f17mfw764s2d6ivsfzz6",
|
|
"depends": ["CompQuadForm", "KernSmooth", "dplyr", "ggplot2", "magrittr", "matrixStats", "patchwork", "pbapply", "reshape2", "rlang", "scattermore", "statmod", "survey", "tibble", "viridisLite"]
|
|
},
|
|
"debCAM": {
|
|
"name": "debCAM",
|
|
"version": "1.22.0",
|
|
"sha256": "1lbgwv7009fpwqw6kl94gmm44xypn60r8kcm3fjzgbjbwijriwgq",
|
|
"depends": ["Biobase", "BiocParallel", "DMwR2", "NMF", "SummarizedExperiment", "apcluster", "corpcor", "geometry", "nnls", "pcaPP", "rJava"]
|
|
},
|
|
"debrowser": {
|
|
"name": "debrowser",
|
|
"version": "1.32.0",
|
|
"sha256": "0qgnx44j6lxw48wlpslagjq71mfx09vrfjq528z7vzn4phrax0by",
|
|
"depends": ["AnnotationDbi", "DESeq2", "DOSE", "DT", "GenomicRanges", "Harman", "IRanges", "RColorBrewer", "RCurl", "S4Vectors", "SummarizedExperiment", "annotate", "apeglm", "ashr", "clusterProfiler", "colourpicker", "edgeR", "enrichplot", "ggplot2", "gplots", "heatmaply", "igraph", "jsonlite", "limma", "org_Hs_eg_db", "org_Mm_eg_db", "pathview", "plotly", "reshape2", "shiny", "shinyBS", "shinydashboard", "shinyjs", "stringi", "sva"]
|
|
},
|
|
"decompTumor2Sig": {
|
|
"name": "decompTumor2Sig",
|
|
"version": "2.20.0",
|
|
"sha256": "1pnxnxz9zsxqs7cbxgkjapr57k2m1d57w5hak0dwcy5zcxjzmai8",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Matrix", "S4Vectors", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "VariantAnnotation", "data_table", "ggplot2", "ggseqlogo", "gridExtra", "plyr", "quadprog", "readxl"]
|
|
},
|
|
"decontX": {
|
|
"name": "decontX",
|
|
"version": "1.2.0",
|
|
"sha256": "0bxpzc9fib47c5prnshzykfd5a3mcik9n1ayd7jxygxy36icgqcj",
|
|
"depends": ["BH", "DelayedArray", "MCMCprecision", "Matrix", "Rcpp", "RcppEigen", "RcppParallel", "S4Vectors", "Seurat", "SingleCellExperiment", "StanHeaders", "SummarizedExperiment", "celda", "dbscan", "ggplot2", "patchwork", "plyr", "reshape2", "rstan", "rstantools", "scater", "withr"]
|
|
},
|
|
"decontam": {
|
|
"name": "decontam",
|
|
"version": "1.24.0",
|
|
"sha256": "1xjd9jzxlj6gfd6fnygzm21q1wy5x5pl031sq1q0svq3jlnzvgb7",
|
|
"depends": ["ggplot2", "reshape2"]
|
|
},
|
|
"deconvR": {
|
|
"name": "deconvR",
|
|
"version": "1.10.0",
|
|
"sha256": "181dxjj8bzy1b9xq9hd3m3ak1698w7j0sf8h9g0bhf3blzlj4pmi",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "assertthat", "data_table", "dplyr", "e1071", "foreach", "magrittr", "matrixStats", "methylKit", "minfi", "nnls", "quadprog", "rsq", "tidyr"]
|
|
},
|
|
"decoupleR": {
|
|
"name": "decoupleR",
|
|
"version": "2.10.0",
|
|
"sha256": "060ww5hlzk0dvh7a52i1nrz1s2xq5mmlw70rxpcs6d4j08k1cmic",
|
|
"depends": ["BiocParallel", "Matrix", "broom", "dplyr", "magrittr", "parallelly", "purrr", "rlang", "stringr", "tibble", "tidyr", "tidyselect", "withr"]
|
|
},
|
|
"deepSNV": {
|
|
"name": "deepSNV",
|
|
"version": "1.50.0",
|
|
"sha256": "1rcq2bg4z6z7czqi662w5gsdc1vd4p8vb353hqayhciv31dz51fr",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Rhtslib", "SummarizedExperiment", "VGAM", "VariantAnnotation"]
|
|
},
|
|
"deltaCaptureC": {
|
|
"name": "deltaCaptureC",
|
|
"version": "1.18.0",
|
|
"sha256": "019c6rlsl4glc4vkbz3kfcn9d9rh3vnfw0xbcsi33hk51z89qc78",
|
|
"depends": ["DESeq2", "GenomicRanges", "IRanges", "SummarizedExperiment", "ggplot2", "tictoc"]
|
|
},
|
|
"deltaGseg": {
|
|
"name": "deltaGseg",
|
|
"version": "1.44.0",
|
|
"sha256": "0jdlcsajpksr58nj551r6biwir20k67ysa42bcingcrgii740yyk",
|
|
"depends": ["changepoint", "fBasics", "ggplot2", "pvclust", "reshape", "scales", "tseries", "wavethresh"]
|
|
},
|
|
"demuxSNP": {
|
|
"name": "demuxSNP",
|
|
"version": "1.2.0",
|
|
"sha256": "0inswz7w97wdy7bhl6p87cyr11z77ipf1rsmri9c2nra8s3ix51d",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "IRanges", "KernelKnn", "Matrix", "MatrixGenerics", "SingleCellExperiment", "SummarizedExperiment", "VariantAnnotation", "class", "demuxmix", "dplyr", "ensembldb"]
|
|
},
|
|
"demuxmix": {
|
|
"name": "demuxmix",
|
|
"version": "1.6.0",
|
|
"sha256": "18wn36rs7iif2cxz0iz17i0dba0llk2zkw7c81bi9v4c7lsijbcb",
|
|
"depends": ["MASS", "Matrix", "ggplot2", "gridExtra"]
|
|
},
|
|
"densvis": {
|
|
"name": "densvis",
|
|
"version": "1.14.0",
|
|
"sha256": "1xsafzcg6psb4ld7nk4wgdaa3xhy8i2v86asasf8h3mi1ms7lcv0",
|
|
"depends": ["Rcpp", "Rtsne", "assertthat", "basilisk", "irlba", "reticulate"]
|
|
},
|
|
"derfinder": {
|
|
"name": "derfinder",
|
|
"version": "1.38.0",
|
|
"sha256": "1i4m20wb08zncksz415jl8bd5r4gdygk7324cp6xhijrc1pfzl1i",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicFiles", "GenomicRanges", "Hmisc", "IRanges", "Rsamtools", "S4Vectors", "bumphunter", "derfinderHelper", "qvalue", "rtracklayer"]
|
|
},
|
|
"derfinderHelper": {
|
|
"name": "derfinderHelper",
|
|
"version": "1.38.0",
|
|
"sha256": "0186wjrszf6c5amibmdblabx3cfvq7p7k6kza38gahw0p7ibwv21",
|
|
"depends": ["IRanges", "Matrix", "S4Vectors"]
|
|
},
|
|
"derfinderPlot": {
|
|
"name": "derfinderPlot",
|
|
"version": "1.38.0",
|
|
"sha256": "177j7bl552n80p2rip0zxjn72yf3pv6xg6g1hi312vapfvymcfbl",
|
|
"depends": ["GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "derfinder", "ggbio", "ggplot2", "limma", "plyr", "reshape2", "scales"]
|
|
},
|
|
"destiny": {
|
|
"name": "destiny",
|
|
"version": "3.18.0",
|
|
"sha256": "0w7j6xh0gzhahk1r8w2wgnylq5v476jzz0g14yjmszfkzm10va3h",
|
|
"depends": ["Biobase", "BiocGenerics", "Matrix", "RSpectra", "Rcpp", "RcppEigen", "RcppHNSW", "SingleCellExperiment", "SummarizedExperiment", "VIM", "ggplot2", "ggplot_multistats", "ggthemes", "irlba", "knn_covertree", "pcaMethods", "proxy", "rlang", "scales", "scatterplot3d", "smoother", "tidyr", "tidyselect"]
|
|
},
|
|
"diffGeneAnalysis": {
|
|
"name": "diffGeneAnalysis",
|
|
"version": "1.86.0",
|
|
"sha256": "1zhgsr2xs2dk45r7msy0qrrsjk21gk622d1wayflhbxsg2s9jlb1",
|
|
"depends": ["minpack_lm"]
|
|
},
|
|
"diffHic": {
|
|
"name": "diffHic",
|
|
"version": "1.36.1",
|
|
"sha256": "1wzlzmmrxmnwgqkxqwga73x0kpj7d968c7jgrln9xfilhhn4fkyy",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "Rcpp", "Rhtslib", "Rsamtools", "S4Vectors", "SummarizedExperiment", "csaw", "edgeR", "limma", "locfit", "rhdf5", "rtracklayer", "zlibbioc"]
|
|
},
|
|
"diffUTR": {
|
|
"name": "diffUTR",
|
|
"version": "1.12.0",
|
|
"sha256": "1rh3ndi8z6j4zr63w7nyvf5knrknzpl9525h3v9pc8m7gbk0jwk2",
|
|
"depends": ["ComplexHeatmap", "DEXSeq", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsubread", "S4Vectors", "SummarizedExperiment", "dplyr", "edgeR", "ensembldb", "ggplot2", "ggrepel", "limma", "matrixStats", "rtracklayer", "stringi", "viridisLite"]
|
|
},
|
|
"diffcoexp": {
|
|
"name": "diffcoexp",
|
|
"version": "1.24.0",
|
|
"sha256": "1cana6v3k7qab0x0fngl4abvh4nrznjwqhaq9m6qwn75ils3bh3f",
|
|
"depends": ["BiocGenerics", "DiffCorr", "SummarizedExperiment", "WGCNA", "igraph", "psych"]
|
|
},
|
|
"diffcyt": {
|
|
"name": "diffcyt",
|
|
"version": "1.24.0",
|
|
"sha256": "1iyqvang5j55s19skd44c1zsxkphn3qqbl4sjhsw1y820ylws5r1",
|
|
"depends": ["ComplexHeatmap", "FlowSOM", "S4Vectors", "SummarizedExperiment", "circlize", "dplyr", "edgeR", "flowCore", "limma", "lme4", "magrittr", "multcomp", "reshape2", "tidyr"]
|
|
},
|
|
"diffuStats": {
|
|
"name": "diffuStats",
|
|
"version": "1.24.0",
|
|
"sha256": "1d46rly5y4xc7hgjhvz2wlx6193jzpw3j8kkjvybr57d9vkl7x8s",
|
|
"depends": ["MASS", "Matrix", "Rcpp", "RcppArmadillo", "RcppParallel", "checkmate", "expm", "igraph", "plyr", "precrec"]
|
|
},
|
|
"diggit": {
|
|
"name": "diggit",
|
|
"version": "1.36.0",
|
|
"sha256": "1fmz15jrdk9395a5wapwkld33xkmvr44xy2qmg8r3l21ayr7j63g",
|
|
"depends": ["Biobase", "ks", "viper"]
|
|
},
|
|
"dinoR": {
|
|
"name": "dinoR",
|
|
"version": "1.0.0",
|
|
"sha256": "10fmj0f3fgga26rs39c9z69w0lnb4i2i00vq354s1qh0ciya6xpc",
|
|
"depends": ["BiocGenerics", "ComplexHeatmap", "GenomicRanges", "Matrix", "SummarizedExperiment", "circlize", "cowplot", "dplyr", "edgeR", "ggplot2", "rlang", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"dir_expiry": {
|
|
"name": "dir.expiry",
|
|
"version": "1.12.0",
|
|
"sha256": "03958xwwywsl5ql6ss1rbkklk49ksgvbp4nqcmmqhn1hiwwn8rvi",
|
|
"depends": ["filelock"]
|
|
},
|
|
"discordant": {
|
|
"name": "discordant",
|
|
"version": "1.28.0",
|
|
"sha256": "034nxwm0z3r0cbjpg8l6cwc6f4jnlj8v9q7r9c9ha9xk6xbah0yr",
|
|
"depends": ["Biobase", "MASS", "Rcpp", "biwt", "dplyr", "gtools"]
|
|
},
|
|
"distinct": {
|
|
"name": "distinct",
|
|
"version": "1.16.0",
|
|
"sha256": "19xpnll4fksbw5hbk3g7a8m34p7jqj31vm7jxapwxxkmng17cpka",
|
|
"depends": ["Matrix", "Rcpp", "RcppArmadillo", "SingleCellExperiment", "SummarizedExperiment", "doParallel", "doRNG", "foreach", "ggplot2", "limma", "scater"]
|
|
},
|
|
"dittoSeq": {
|
|
"name": "dittoSeq",
|
|
"version": "1.16.0",
|
|
"sha256": "15p01f3yaan9x7y6ld1kx40jnbcn6vjjm5n6ir7cicdvv4w5ln49",
|
|
"depends": ["S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "colorspace", "cowplot", "ggplot2", "ggrepel", "ggridges", "gridExtra", "pheatmap", "reshape2"]
|
|
},
|
|
"divergence": {
|
|
"name": "divergence",
|
|
"version": "1.20.0",
|
|
"sha256": "0gm9p5lnxyfww5djgar1kp1lfmi2a30w2xbmh456a2808xdygdgf",
|
|
"depends": ["SummarizedExperiment"]
|
|
},
|
|
"dks": {
|
|
"name": "dks",
|
|
"version": "1.50.0",
|
|
"sha256": "1j7xbdxk5ghh76fys6vnhnxf627xl70h4b7jn2mladgjw0cszklk",
|
|
"depends": ["cubature"]
|
|
},
|
|
"dmrseq": {
|
|
"name": "dmrseq",
|
|
"version": "1.24.1",
|
|
"sha256": "0x7gwdzpn1ziq5vm80fs1fcyknapwjs8zfbjszw66zs36nqnqgw4",
|
|
"depends": ["AnnotationHub", "BiocParallel", "DelayedMatrixStats", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "annotatr", "bsseq", "bumphunter", "ggplot2", "locfit", "matrixStats", "nlme", "outliers", "rtracklayer"]
|
|
},
|
|
"doppelgangR": {
|
|
"name": "doppelgangR",
|
|
"version": "1.32.0",
|
|
"sha256": "1kxw5x1fwdn2hzzf6ckxz0k8qqghvr0qdx3fgx31jdla0zc9z1zm",
|
|
"depends": ["Biobase", "BiocParallel", "SummarizedExperiment", "digest", "impute", "mnormt", "sva"]
|
|
},
|
|
"doseR": {
|
|
"name": "doseR",
|
|
"version": "1.20.0",
|
|
"sha256": "09zr2r1vk1azrjwgx2bklv5sdypl3dba0szvh21nw1ndqyk9lwic",
|
|
"depends": ["RUnit", "S4Vectors", "SummarizedExperiment", "digest", "edgeR", "lme4", "matrixStats", "mclust"]
|
|
},
|
|
"doubletrouble": {
|
|
"name": "doubletrouble",
|
|
"version": "1.4.1",
|
|
"sha256": "057l5qirwyh7swcyavyqd9d3qy9qxs8rasjzyglbz266sw3z5p36",
|
|
"depends": ["AnnotationDbi", "Biostrings", "GenomicFeatures", "GenomicRanges", "MSA2dist", "ggplot2", "mclust", "rlang", "syntenet"]
|
|
},
|
|
"drawProteins": {
|
|
"name": "drawProteins",
|
|
"version": "1.24.0",
|
|
"sha256": "1ap2lclwpr532pzapz61pd6lclq3d3idvq4462x19jaivnhf6mr5",
|
|
"depends": ["dplyr", "ggplot2", "httr", "readr", "tidyr"]
|
|
},
|
|
"dreamlet": {
|
|
"name": "dreamlet",
|
|
"version": "1.2.1",
|
|
"sha256": "06mpmwjxp7zs9fsggf2b3qc5vgmx6l5s7prl6l7b753zfq5gvjbg",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DelayedArray", "DelayedMatrixStats", "GSEABase", "IRanges", "MASS", "Matrix", "MatrixGenerics", "Rcpp", "Rdpack", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ashr", "beachmat", "broom", "data_table", "dplyr", "edgeR", "ggbeeswarm", "ggplot2", "ggrepel", "gtools", "irlba", "limma", "lme4", "mashr", "metafor", "purrr", "remaCor", "reshape2", "rlang", "scattermore", "sparseMatrixStats", "tidyr", "variancePartition", "zenith"]
|
|
},
|
|
"drugTargetInteractions": {
|
|
"name": "drugTargetInteractions",
|
|
"version": "1.12.0",
|
|
"sha256": "079qy3mmv9skiybzh9ls3082wqb3r9x6fn50rgcwziapixlx2rh4",
|
|
"depends": ["AnnotationFilter", "BiocFileCache", "RSQLite", "S4Vectors", "UniProt_ws", "biomaRt", "dplyr", "ensembldb", "rappdirs"]
|
|
},
|
|
"dupRadar": {
|
|
"name": "dupRadar",
|
|
"version": "1.34.0",
|
|
"sha256": "0wd03v3qqmprv1n8018w0qqaw0majhx2i33qam7vf4rm2ng1gcxj",
|
|
"depends": ["KernSmooth", "Rsubread"]
|
|
},
|
|
"dyebias": {
|
|
"name": "dyebias",
|
|
"version": "1.64.0",
|
|
"sha256": "1k676kx37f6gdlrld2z7pygdf2cgin0d2cqgas83xizcq07ngnld",
|
|
"depends": ["Biobase", "marray"]
|
|
},
|
|
"easier": {
|
|
"name": "easier",
|
|
"version": "1.10.0",
|
|
"sha256": "00c0dssv41brpwsh09zh23b7r3y7vax16viwc33nniig3f724id2",
|
|
"depends": ["BiocParallel", "DESeq2", "ROCR", "coin", "decoupleR", "dorothea", "dplyr", "easierData", "ggplot2", "ggpubr", "ggrepel", "magrittr", "matrixStats", "progeny", "quantiseqr", "reshape2", "rlang", "rstatix", "tibble", "tidyr"]
|
|
},
|
|
"easyRNASeq": {
|
|
"name": "easyRNASeq",
|
|
"version": "2.40.1",
|
|
"sha256": "1j36g6nyzbsaqz798q6yvgqx2vpjnzsi7b2pvldfpzkx1734isbx",
|
|
"depends": ["Biobase", "BiocFileCache", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "LSD", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "biomaRt", "edgeR", "genomeIntervals", "rappdirs"]
|
|
},
|
|
"easylift": {
|
|
"name": "easylift",
|
|
"version": "1.2.0",
|
|
"sha256": "17kc61n79iiwvwm4zpdh1a7a7q196fjs289kd95z6b7m4sp78l4b",
|
|
"depends": ["BiocFileCache", "GenomeInfoDb", "GenomicRanges", "R_utils", "rtracklayer"]
|
|
},
|
|
"easyreporting": {
|
|
"name": "easyreporting",
|
|
"version": "1.16.0",
|
|
"sha256": "0nlywvb35w8x90rx1b8535sls3n4kbfzkxrkm5g1ismsdxjs16cj",
|
|
"depends": ["rlang", "rmarkdown", "shiny"]
|
|
},
|
|
"ecolitk": {
|
|
"name": "ecolitk",
|
|
"version": "1.76.0",
|
|
"sha256": "1knnvzxlf8gsn3r0sfadlsb4ln2csjizc1i0yffpv75yxrqa0ycd",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"edge": {
|
|
"name": "edge",
|
|
"version": "2.36.0",
|
|
"sha256": "10ddfwnvbh71q4aplb8ykahk8jmd80v0agny9mskmgkry35bi89s",
|
|
"depends": ["Biobase", "MASS", "qvalue", "sva"]
|
|
},
|
|
"edgeR": {
|
|
"name": "edgeR",
|
|
"version": "4.2.1",
|
|
"sha256": "0c9r4gcsaf6fqkc4r49vj8az6wplqsbkd423pb4fvrv5lka9aqi9",
|
|
"depends": ["Rcpp", "limma", "locfit"]
|
|
},
|
|
"eds": {
|
|
"name": "eds",
|
|
"version": "1.6.0",
|
|
"sha256": "006d5gx7hz51v2icq6bi1hy8r9g5qgxrf7xf3s72asny2vdn3qw4",
|
|
"depends": ["Matrix", "Rcpp"]
|
|
},
|
|
"eiR": {
|
|
"name": "eiR",
|
|
"version": "1.44.0",
|
|
"sha256": "1ia8ygj2sashjwign28xfilj7j0a4r03nmgq6qzfsyw679wq4m2v",
|
|
"depends": ["BiocGenerics", "ChemmineR", "DBI", "RCurl", "RUnit", "RcppAnnoy", "digest", "snow", "snowfall"]
|
|
},
|
|
"eisaR": {
|
|
"name": "eisaR",
|
|
"version": "1.16.0",
|
|
"sha256": "0in6bkakplpqvfr8zya850sdl0jr4h1qdsw1shvd9wjr3yxdmsad",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "edgeR", "limma"]
|
|
},
|
|
"enhancerHomologSearch": {
|
|
"name": "enhancerHomologSearch",
|
|
"version": "1.10.0",
|
|
"sha256": "00hm42zvkgz0r3s0k4ljfcbwfkysd1sw6k3zm00fxglgigvfs8r3",
|
|
"depends": ["BSgenome", "BiocFileCache", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "S4Vectors", "httr", "jsonlite", "motifmatchr", "pwalign", "rtracklayer"]
|
|
},
|
|
"enrichViewNet": {
|
|
"name": "enrichViewNet",
|
|
"version": "1.2.0",
|
|
"sha256": "1xnxkcy0ifhf3d5qfngh5vrxz3699azjjigr17qm4zmq7qdsp7h2",
|
|
"depends": ["DOSE", "RCy3", "enrichplot", "gprofiler2", "jsonlite", "strex", "stringr"]
|
|
},
|
|
"enrichplot": {
|
|
"name": "enrichplot",
|
|
"version": "1.24.2",
|
|
"sha256": "03p0a1vyaznk405xpkp57f22wg8x7lxiipjh101p7dq97rbzr4r7",
|
|
"depends": ["DOSE", "GOSemSim", "RColorBrewer", "aplot", "ggfun", "ggnewscale", "ggplot2", "ggraph", "ggtree", "igraph", "magrittr", "plyr", "purrr", "reshape2", "rlang", "scatterpie", "shadowtext", "yulab_utils"]
|
|
},
|
|
"ensemblVEP": {
|
|
"name": "ensemblVEP",
|
|
"version": "1.46.0",
|
|
"sha256": "10lq13v2qww8d251digx4g50y3vab6sg9kmxkdy00q40ncn042g6",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "S4Vectors", "SummarizedExperiment", "VariantAnnotation"]
|
|
},
|
|
"ensembldb": {
|
|
"name": "ensembldb",
|
|
"version": "2.28.0",
|
|
"sha256": "10h3ngwq99y0d3ksf0303qjw263ard1zsawpq1pw5n9r5g7xll47",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "Biobase", "BiocGenerics", "Biostrings", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "ProtGenerics", "RSQLite", "Rsamtools", "S4Vectors", "curl", "rtracklayer"]
|
|
},
|
|
"epiNEM": {
|
|
"name": "epiNEM",
|
|
"version": "1.28.0",
|
|
"sha256": "156qj9r121j6c9vr6fh2zi9aaq3kq9gabjxg4l5wj47vj1d427az",
|
|
"depends": ["BoolNet", "RColorBrewer", "e1071", "graph", "gtools", "igraph", "latex2exp", "lattice", "latticeExtra", "minet", "mnem", "pcalg"]
|
|
},
|
|
"epialleleR": {
|
|
"name": "epialleleR",
|
|
"version": "1.12.0",
|
|
"sha256": "1jdhzcs6l3v4765dxlqc7gn2yxy9fvzk94aixl5bqxmn4v4hyasq",
|
|
"depends": ["BH", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "Rcpp", "Rhtslib", "SummarizedExperiment", "VariantAnnotation", "data_table", "zlibbioc"]
|
|
},
|
|
"epidecodeR": {
|
|
"name": "epidecodeR",
|
|
"version": "1.12.0",
|
|
"sha256": "0gmdmjvl93zgsi9yclscw94y1caspb2pnjawxhv3yqmnhjq3dzhz",
|
|
"depends": ["EnvStats", "GenomicRanges", "IRanges", "dplyr", "ggplot2", "ggpubr", "rstatix", "rtracklayer"]
|
|
},
|
|
"epigenomix": {
|
|
"name": "epigenomix",
|
|
"version": "1.44.0",
|
|
"sha256": "1c1lwz5lbq69anpk1q7dhlfrvb66g8vrfyw7130x1c6y5yryk23k",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "MCMCpack", "Rsamtools", "S4Vectors", "SummarizedExperiment", "beadarray"]
|
|
},
|
|
"epigraHMM": {
|
|
"name": "epigraHMM",
|
|
"version": "1.12.0",
|
|
"sha256": "1zkb81jd2gsj92yzlxhshaw4csap9b06gyy5gl1qi3k3qkx69dq9",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "GreyListChIP", "IRanges", "MASS", "Matrix", "Rcpp", "RcppArmadillo", "Rhdf5lib", "Rsamtools", "S4Vectors", "SummarizedExperiment", "bamsignals", "csaw", "data_table", "ggplot2", "ggpubr", "limma", "magrittr", "pheatmap", "rhdf5", "rtracklayer", "scales"]
|
|
},
|
|
"epimutacions": {
|
|
"name": "epimutacions",
|
|
"version": "1.8.0",
|
|
"sha256": "15lrkz7fqmjg5d2l77xbiqwdd3f2jnbw9nc6l4k6wglw3za3prr1",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocGenerics", "BiocParallel", "ExperimentHub", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Gviz", "Homo_sapiens", "IRanges", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylation450kmanifest", "IlluminaHumanMethylationEPICanno_ilm10b2_hg19", "IlluminaHumanMethylationEPICmanifest", "S4Vectors", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg18_knownGene", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "biomaRt", "bumphunter", "ensembldb", "epimutacionsData", "ggplot2", "ggrepel", "gridExtra", "isotree", "matrixStats", "minfi", "purrr", "reshape2", "robustbase", "rtracklayer", "tibble"]
|
|
},
|
|
"epiregulon": {
|
|
"name": "epiregulon",
|
|
"version": "1.0.1",
|
|
"sha256": "0zhnra2kl1r2kh9g21fx3nqyb5sksnf7j81dzhjnwjvmlr52xp8w",
|
|
"depends": ["AUCell", "AnnotationHub", "BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Hsapiens_UCSC_hg38", "BSgenome_Mmusculus_UCSC_mm10", "BiocParallel", "ExperimentHub", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "bluster", "checkmate", "entropy", "lifecycle", "motifmatchr", "scMultiome", "scran", "scuttle"]
|
|
},
|
|
"epiregulon_extra": {
|
|
"name": "epiregulon.extra",
|
|
"version": "1.0.1",
|
|
"sha256": "0wfslvp85vz792dacirqzmfqp1phs91v6lcmly9m14vw892651pn",
|
|
"depends": ["ComplexHeatmap", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "checkmate", "circlize", "clusterProfiler", "ggplot2", "ggraph", "igraph", "lifecycle", "patchwork", "reshape2", "scales", "scater", "scran"]
|
|
},
|
|
"epistack": {
|
|
"name": "epistack",
|
|
"version": "1.10.0",
|
|
"sha256": "1kfviv9k43n6hy66x5r5hc2f7vb3y3v81qk1m9549nqvdii7ph5q",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "plotrix"]
|
|
},
|
|
"epistasisGA": {
|
|
"name": "epistasisGA",
|
|
"version": "1.6.0",
|
|
"sha256": "1rq1jgd95zamg3fsyj8nbvg95chjaf9d30xlg8d6rr071ya9f03v",
|
|
"depends": ["BH", "BiocParallel", "Rcpp", "RcppArmadillo", "batchtools", "bigmemory", "data_table", "ggplot2", "igraph", "matrixStats", "qgraph", "survival"]
|
|
},
|
|
"epivizr": {
|
|
"name": "epivizr",
|
|
"version": "2.34.0",
|
|
"sha256": "07y6h9dk0mz5nh1ivbrf1l2smlw7y0ygdmh9k1fn50lc6120dq37",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "bumphunter", "epivizrData", "epivizrServer"]
|
|
},
|
|
"epivizrChart": {
|
|
"name": "epivizrChart",
|
|
"version": "1.26.0",
|
|
"sha256": "0yq0mqkzvvp5mva24ky7sqa6107rcaxlircw0wg8bsalcxynvgzw",
|
|
"depends": ["BiocGenerics", "epivizrData", "epivizrServer", "htmltools", "rjson"]
|
|
},
|
|
"epivizrData": {
|
|
"name": "epivizrData",
|
|
"version": "1.32.0",
|
|
"sha256": "11x47w0rvn109brah7140nn5844vvmdpbgdc2c3q2ycxm40fl6rq",
|
|
"depends": ["Biobase", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "OrganismDbi", "S4Vectors", "SummarizedExperiment", "ensembldb", "epivizrServer"]
|
|
},
|
|
"epivizrServer": {
|
|
"name": "epivizrServer",
|
|
"version": "1.32.0",
|
|
"sha256": "11ba652yhnl7xi7fgw3s32siwd38mrsxsklm0n6f5v081g3a7g3s",
|
|
"depends": ["R6", "httpuv", "mime", "rjson"]
|
|
},
|
|
"epivizrStandalone": {
|
|
"name": "epivizrStandalone",
|
|
"version": "1.32.0",
|
|
"sha256": "0qrngsga0qfadbijjikfzgpl6i0vnvkcssnf1z3y1fm8mkq35b4z",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "S4Vectors", "epivizr", "epivizrServer", "git2r"]
|
|
},
|
|
"erccdashboard": {
|
|
"name": "erccdashboard",
|
|
"version": "1.38.0",
|
|
"sha256": "0cghksf9gkgkcak8493s4pixq2nd3a7zc91vqq158g5na6ca24n7",
|
|
"depends": ["MASS", "ROCR", "edgeR", "ggplot2", "gplots", "gridExtra", "gtools", "limma", "locfit", "plyr", "qvalue", "reshape2", "scales", "stringr"]
|
|
},
|
|
"erma": {
|
|
"name": "erma",
|
|
"version": "1.20.0",
|
|
"sha256": "0f4y0szdqhg63vaw7f1lmgzb72bhfpz20g9naq84s8bq2xsf8cy6",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicFiles", "GenomicRanges", "Homo_sapiens", "IRanges", "S4Vectors", "SummarizedExperiment", "ggplot2", "rtracklayer", "shiny"]
|
|
},
|
|
"esATAC": {
|
|
"name": "esATAC",
|
|
"version": "1.26.0",
|
|
"sha256": "0gfil57zc5bzhk29cw16bv02kng7hqs5ry1kakly1kvcfafcn87s",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "BiocManager", "Biostrings", "ChIPseeker", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "JASPAR2018", "R_utils", "Rbowtie2", "Rcpp", "Rsamtools", "S4Vectors", "ShortRead", "TFBSTools", "VennDiagram", "clusterProfiler", "corrplot", "digest", "ggplot2", "igraph", "knitr", "magrittr", "motifmatchr", "pipeFrame", "rJava", "rmarkdown", "rtracklayer"]
|
|
},
|
|
"escape": {
|
|
"name": "escape",
|
|
"version": "2.0.0",
|
|
"sha256": "03wbrxd7kjyl3d4s418ql5fv7bmwdfyfp10jd8knr0xis7vxmz2x",
|
|
"depends": ["AUCell", "BiocParallel", "GSEABase", "GSVA", "MatrixGenerics", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "UCell", "dplyr", "ggdist", "ggplot2", "ggpointdensity", "ggridges", "msigdbr", "patchwork", "reshape2", "stringr"]
|
|
},
|
|
"escheR": {
|
|
"name": "escheR",
|
|
"version": "1.4.0",
|
|
"sha256": "16sqxsvpvb9idb7crbr3kq5xcifpzdw29lcxvrn2kxq003n7hbqw",
|
|
"depends": ["SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "ggplot2", "rlang"]
|
|
},
|
|
"esetVis": {
|
|
"name": "esetVis",
|
|
"version": "1.30.0",
|
|
"sha256": "1b51cv3bl11jymjwnd8150lw5ab7bpa4jj09ssisn3qnb5nym7lj",
|
|
"depends": ["Biobase", "MASS", "MLP", "Rtsne", "hexbin", "mpm"]
|
|
},
|
|
"eudysbiome": {
|
|
"name": "eudysbiome",
|
|
"version": "1.34.0",
|
|
"sha256": "12kbk17rfh1icxdj5kkz66d72p9rq4bw9nh52bvah5i3bq7wi5zn",
|
|
"depends": ["Biostrings", "R_utils", "Rsamtools", "plyr"]
|
|
},
|
|
"evaluomeR": {
|
|
"name": "evaluomeR",
|
|
"version": "1.20.5",
|
|
"sha256": "18hp7j6m7fpnaa4l9clqff1xg0lmvwsh0s26c5gq75r1d6k05m4p",
|
|
"depends": ["MASS", "MultiAssayExperiment", "RSKC", "Rdpack", "SummarizedExperiment", "class", "cluster", "corrplot", "dendextend", "dplyr", "flexmix", "fpc", "ggdendro", "ggplot2", "kableExtra", "matrixStats", "mclust", "plotrix", "prabclus", "randomForest", "reshape2", "sparcl"]
|
|
},
|
|
"extraChIPs": {
|
|
"name": "extraChIPs",
|
|
"version": "1.8.5",
|
|
"sha256": "1cznznlr2w8p5wjc4i6vcmxv9lhvgf7xglxd75gm9s60w8hi31yj",
|
|
"depends": ["BiocIO", "BiocParallel", "ComplexUpset", "GenomeInfoDb", "GenomicInteractions", "GenomicRanges", "IRanges", "InteractionSet", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VennDiagram", "broom", "csaw", "dplyr", "edgeR", "forcats", "ggforce", "ggplot2", "ggrepel", "ggside", "glue", "matrixStats", "patchwork", "rlang", "rtracklayer", "scales", "stringr", "tibble", "tidyr", "tidyselect", "vctrs"]
|
|
},
|
|
"fCCAC": {
|
|
"name": "fCCAC",
|
|
"version": "1.30.0",
|
|
"sha256": "0qvwsqvv1g4fcjhy88kq2z5nzlhhvx6p6ffaqis70wbgvr5p4aw0",
|
|
"depends": ["ComplexHeatmap", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "fda", "genomation", "ggplot2"]
|
|
},
|
|
"fCI": {
|
|
"name": "fCI",
|
|
"version": "1.34.0",
|
|
"sha256": "0szrdyw57k6wa8zr80gyxidfhcc1v88gj6bjank3dc478f1kn9d0",
|
|
"depends": ["FNN", "VennDiagram", "gtools", "psych", "rgl", "zoo"]
|
|
},
|
|
"fabia": {
|
|
"name": "fabia",
|
|
"version": "2.50.0",
|
|
"sha256": "06zlhacfs1mad26pni3fkh3ijh7ca75cr1v2gd62igsw7cf4wdli",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"factDesign": {
|
|
"name": "factDesign",
|
|
"version": "1.80.0",
|
|
"sha256": "1g7vjb3lrx4a5ks9nsr7z7nrbf8d7f83c37b2fwacx56fbps7f51",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"factR": {
|
|
"name": "factR",
|
|
"version": "1.6.0",
|
|
"sha256": "1y19wd0j9rlbfi2rqk73gcyszbg4p4cl2w3zqckyvv9969i9rjid",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RCurl", "S4Vectors", "XML", "crayon", "data_table", "dplyr", "drawProteins", "ggplot2", "pbapply", "purrr", "rlang", "rtracklayer", "stringr", "tibble", "tidyr", "wiggleplotr"]
|
|
},
|
|
"faers": {
|
|
"name": "faers",
|
|
"version": "1.0.3",
|
|
"sha256": "09cha2kzc3bjgd4yww9pymvk7d1wnw3qh70vl1sra52vz89hif4j",
|
|
"depends": ["BiocParallel", "MCMCpack", "brio", "cli", "curl", "data_table", "httr2", "openEBGM", "rlang", "rvest", "vroom", "xml2"]
|
|
},
|
|
"famat": {
|
|
"name": "famat",
|
|
"version": "1.14.0",
|
|
"sha256": "099l12m27ys5glbigi9q9hr7941yy9jxrzsbxf993gs71qajlsgh",
|
|
"depends": ["BiasedUrn", "DT", "GO_db", "KEGGREST", "clusterProfiler", "dplyr", "gprofiler2", "magrittr", "mgcv", "ontologyIndex", "org_Hs_eg_db", "plotly", "rWikiPathways", "reactome_db", "shiny", "shinyBS", "shinydashboard", "stringr", "tidyr"]
|
|
},
|
|
"fastLiquidAssociation": {
|
|
"name": "fastLiquidAssociation",
|
|
"version": "1.40.0",
|
|
"sha256": "0nhr2w0b491xh6bc2j9mc9a87yblr3l4kmnm8gxlnc27fav3jzj8",
|
|
"depends": ["Hmisc", "LiquidAssociation", "WGCNA", "doParallel", "impute", "preprocessCore"]
|
|
},
|
|
"fastreeR": {
|
|
"name": "fastreeR",
|
|
"version": "1.8.0",
|
|
"sha256": "0r1xngxdblgshgkr4l762kgxqaq9s79g4f3lirlkd9bb248pzfvc",
|
|
"depends": ["R_utils", "ape", "data_table", "dynamicTreeCut", "rJava", "stringr"]
|
|
},
|
|
"fastseg": {
|
|
"name": "fastseg",
|
|
"version": "1.50.0",
|
|
"sha256": "03gl7z7q90jy47q57gfbj5fkv5n8hi43jbbrl53bdyp71f26ry2d",
|
|
"depends": ["Biobase", "BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors"]
|
|
},
|
|
"fcScan": {
|
|
"name": "fcScan",
|
|
"version": "1.18.0",
|
|
"sha256": "1gb15zrv44yn65wns7dk24rp54qv7wafqxgk1q8jnbkq9lp5wj2y",
|
|
"depends": ["GenomicRanges", "IRanges", "SummarizedExperiment", "VariantAnnotation", "doParallel", "foreach", "plyr", "rtracklayer"]
|
|
},
|
|
"fdrame": {
|
|
"name": "fdrame",
|
|
"version": "1.76.0",
|
|
"sha256": "0a28pw2wi3l8a3x5sxq8aa52fagb678q6wbaajqznx7yflk2s88v",
|
|
"depends": []
|
|
},
|
|
"fedup": {
|
|
"name": "fedup",
|
|
"version": "1.12.0",
|
|
"sha256": "0q1bvx8zv5c1pzi82v8yxgdxb85l7nzan8k6xwsr1xmdy224lpgf",
|
|
"depends": ["RColorBrewer", "RCy3", "data_table", "dplyr", "forcats", "ggplot2", "ggthemes", "openxlsx", "tibble"]
|
|
},
|
|
"fenr": {
|
|
"name": "fenr",
|
|
"version": "1.2.1",
|
|
"sha256": "19hhdvfmml8njsw86ny1hp9x8pn7hdcqbbyd6qygr8z0lqpfpb9d",
|
|
"depends": ["BiocFileCache", "assertthat", "dplyr", "ggplot2", "httr2", "progress", "purrr", "readr", "rlang", "rvest", "shiny", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"ffpe": {
|
|
"name": "ffpe",
|
|
"version": "1.48.0",
|
|
"sha256": "1y769nnwbc9rjjpwxqgfw0v58ym4g9qy695adcyswl8z955yhjax",
|
|
"depends": ["Biobase", "BiocGenerics", "TTR", "affy", "lumi", "methylumi", "sfsmisc"]
|
|
},
|
|
"fgga": {
|
|
"name": "fgga",
|
|
"version": "1.12.0",
|
|
"sha256": "18bvf1qjdzd66sf479ghf3pg4cnwpwmzkhcvi6zriqd7mvsll8fr",
|
|
"depends": ["BiocFileCache", "RBGL", "curl", "e1071", "gRbase", "graph", "igraph", "jsonlite"]
|
|
},
|
|
"fgsea": {
|
|
"name": "fgsea",
|
|
"version": "1.30.0",
|
|
"sha256": "0nnvqsyrj24h5y8qw8llk9f4jgy0v734k37kcksfcpja17frdyjy",
|
|
"depends": ["BH", "BiocParallel", "Matrix", "Rcpp", "cowplot", "data_table", "fastmatch", "ggplot2", "scales"]
|
|
},
|
|
"findIPs": {
|
|
"name": "findIPs",
|
|
"version": "1.0.0",
|
|
"sha256": "08vf1i2j9h1174q5sx58hjfa62cbb6ylwzmj4bwkcibazdac5n60",
|
|
"depends": ["Biobase", "BiocParallel", "SummarizedExperiment", "survival"]
|
|
},
|
|
"fishpond": {
|
|
"name": "fishpond",
|
|
"version": "2.10.0",
|
|
"sha256": "02lzx8whxd3z4k0saf0vaq4np8lag00nkp3hd6da1w91vczs1kjl",
|
|
"depends": ["GenomicRanges", "IRanges", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "abind", "gtools", "jsonlite", "matrixStats", "qvalue", "svMisc"]
|
|
},
|
|
"flagme": {
|
|
"name": "flagme",
|
|
"version": "1.60.0",
|
|
"sha256": "0gi2hwd13q4rdmzf45xcbmdpr3b3hbqabv6csmjfiqqqj4cl3wy9",
|
|
"depends": ["CAMERA", "MASS", "SparseM", "gcspikelite", "gplots", "xcms"]
|
|
},
|
|
"flowAI": {
|
|
"name": "flowAI",
|
|
"version": "1.34.0",
|
|
"sha256": "1siqza92iak5lz38hbfznqndrmq995ihp6sbam0n2d3mj8vwv9qa",
|
|
"depends": ["RColorBrewer", "changepoint", "flowCore", "ggplot2", "knitr", "plyr", "reshape2", "rmarkdown", "scales"]
|
|
},
|
|
"flowBeads": {
|
|
"name": "flowBeads",
|
|
"version": "1.42.0",
|
|
"sha256": "12zj4w37l760a5j3pwd27yjlfx6ywkcw1rxmp83pgmfwkh8jhvj1",
|
|
"depends": ["Biobase", "flowCore", "knitr", "rrcov", "xtable"]
|
|
},
|
|
"flowBin": {
|
|
"name": "flowBin",
|
|
"version": "1.40.0",
|
|
"sha256": "0g0kxxq4c2zm4yvi2yx1czyiiwhvmlfwvqnkyap4kbid05zy1q1i",
|
|
"depends": ["BiocGenerics", "class", "flowCore", "flowFP", "limma", "snow"]
|
|
},
|
|
"flowCHIC": {
|
|
"name": "flowCHIC",
|
|
"version": "1.38.0",
|
|
"sha256": "0zia2gsi53vbmqijljdgxmglssqfmhiqa0bzr5zr03l32aglcp4y",
|
|
"depends": ["EBImage", "flowCore", "ggplot2", "hexbin", "vegan"]
|
|
},
|
|
"flowClean": {
|
|
"name": "flowClean",
|
|
"version": "1.42.0",
|
|
"sha256": "1a588wx63q10lpx7w3f0120ngiprgadr66fl3jvwi4g2yhkwpjsr",
|
|
"depends": ["bit", "changepoint", "flowCore", "sfsmisc"]
|
|
},
|
|
"flowClust": {
|
|
"name": "flowClust",
|
|
"version": "3.42.0",
|
|
"sha256": "1zjjzn10nvbj7lhg9kvp8gr7m2m294pa3zdmajq65ffdynaaavnd",
|
|
"depends": ["Biobase", "BiocGenerics", "flowCore", "graph"]
|
|
},
|
|
"flowCore": {
|
|
"name": "flowCore",
|
|
"version": "2.16.0",
|
|
"sha256": "1zq3qypmzk9ld48r50fmygfdqwwyykii8l0l6gh5bdrdan760bfn",
|
|
"depends": ["BH", "Biobase", "BiocGenerics", "RProtoBufLib", "Rcpp", "S4Vectors", "cpp11", "cytolib", "matrixStats"]
|
|
},
|
|
"flowCut": {
|
|
"name": "flowCut",
|
|
"version": "1.14.0",
|
|
"sha256": "0mhdkkv8n1650wmnasprbpr5wm31s5s2in1n60rcsbb78hl7d278",
|
|
"depends": ["Cairo", "e1071", "flowCore", "flowDensity"]
|
|
},
|
|
"flowCyBar": {
|
|
"name": "flowCyBar",
|
|
"version": "1.40.0",
|
|
"sha256": "0cf7b6wqs3wr274fwj8z346432mziv43dgs2qmx2qs6zlq6p2vya",
|
|
"depends": ["gplots", "vegan"]
|
|
},
|
|
"flowDensity": {
|
|
"name": "flowDensity",
|
|
"version": "1.38.0",
|
|
"sha256": "17v43jsrgg09ww0ga2dvryvzz4j2skzyhx51vn2lfm13fjbprhcc",
|
|
"depends": ["car", "flowCore", "flowViz", "gplots", "polyclip"]
|
|
},
|
|
"flowFP": {
|
|
"name": "flowFP",
|
|
"version": "1.62.0",
|
|
"sha256": "1rpmqk4w4ab6wn0gygpyzzxbgs3ds66pa2lr2sy48b4gxalpr3hc",
|
|
"depends": ["Biobase", "BiocGenerics", "flowCore", "flowViz"]
|
|
},
|
|
"flowGate": {
|
|
"name": "flowGate",
|
|
"version": "1.4.0",
|
|
"sha256": "1jag6h8inizjmfi69ybs39y4f0zqhc0rb4rrq5yzgy1s5z4ba9fi",
|
|
"depends": ["BiocManager", "dplyr", "flowCore", "flowWorkspace", "ggcyto", "ggplot2", "purrr", "rlang", "shiny", "tibble"]
|
|
},
|
|
"flowGraph": {
|
|
"name": "flowGraph",
|
|
"version": "1.12.0",
|
|
"sha256": "1zxpiz8nm3awzkf7wqql73b9kgydgza72yp2kv59gyf1lcsli0ns",
|
|
"depends": ["Matrix", "Rdpack", "data_table", "effsize", "furrr", "future", "ggiraph", "ggplot2", "ggrepel", "gridExtra", "htmlwidgets", "igraph", "matrixStats", "purrr", "stringi", "stringr", "visNetwork"]
|
|
},
|
|
"flowMatch": {
|
|
"name": "flowMatch",
|
|
"version": "1.40.0",
|
|
"sha256": "0k83702b9k5nsng67awr7mz3jq9yxs4dkvvg2hcn29m1s42a2i63",
|
|
"depends": ["Biobase", "Rcpp", "flowCore"]
|
|
},
|
|
"flowMeans": {
|
|
"name": "flowMeans",
|
|
"version": "1.64.0",
|
|
"sha256": "0bkp3q71qj1r2bwfpfriflqklvcqpvh760as7sr489sb18y1xlms",
|
|
"depends": ["Biobase", "feature", "flowCore", "rrcov"]
|
|
},
|
|
"flowMerge": {
|
|
"name": "flowMerge",
|
|
"version": "2.52.0",
|
|
"sha256": "1z675mj3jsi0n9x03nbw12z001c8jz9pm64ypvb1g6f51bnq1fyx",
|
|
"depends": ["Rgraphviz", "feature", "flowClust", "flowCore", "foreach", "graph", "rrcov", "snow"]
|
|
},
|
|
"flowPeaks": {
|
|
"name": "flowPeaks",
|
|
"version": "1.50.0",
|
|
"sha256": "065nkldia602w36bks394qdf96330ahnrz9jpks2gv8r91pk7pf5",
|
|
"depends": []
|
|
},
|
|
"flowPloidy": {
|
|
"name": "flowPloidy",
|
|
"version": "1.30.0",
|
|
"sha256": "06grhvskia03xakfcs776fiz7i3i04crysykrmnyz1jxbaa2irba",
|
|
"depends": ["caTools", "car", "flowCore", "knitr", "minpack_lm", "rmarkdown", "shiny"]
|
|
},
|
|
"flowPlots": {
|
|
"name": "flowPlots",
|
|
"version": "1.52.0",
|
|
"sha256": "03kpsfdfr3hwlqjbyq787dnhixg1zs22chi2y1776zjpvxp94ixf",
|
|
"depends": []
|
|
},
|
|
"flowSpecs": {
|
|
"name": "flowSpecs",
|
|
"version": "1.18.0",
|
|
"sha256": "1774h2sgabnynhc8xlc3ngnkspvs544hhb5ijk3xm2p4ah2md0w1",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "flowCore", "ggplot2", "reshape2", "zoo"]
|
|
},
|
|
"flowStats": {
|
|
"name": "flowStats",
|
|
"version": "4.16.0",
|
|
"sha256": "0q8g3sqmbhinfrb63yhv4lsczjz7pqwhwwsdlz2cg7s8yhp0cj6v",
|
|
"depends": ["Biobase", "BiocGenerics", "KernSmooth", "MASS", "RColorBrewer", "clue", "cluster", "corpcor", "fda", "flowCore", "flowViz", "flowWorkspace", "ks", "lattice", "mnormt", "ncdfFlow", "rrcov"]
|
|
},
|
|
"flowTime": {
|
|
"name": "flowTime",
|
|
"version": "1.28.0",
|
|
"sha256": "1z7djyka5cpaa3bfgz9q8kwv50k6k5fd666415szfiq5vnlpvn4y",
|
|
"depends": ["dplyr", "flowCore", "magrittr", "plyr", "rlang", "tibble"]
|
|
},
|
|
"flowTrans": {
|
|
"name": "flowTrans",
|
|
"version": "1.56.0",
|
|
"sha256": "0i8rr5qrfszh03j5ch90nqf4ayqamh2kk2c7g1brxbi31qvkm9ag",
|
|
"depends": ["flowClust", "flowCore", "flowViz"]
|
|
},
|
|
"flowVS": {
|
|
"name": "flowVS",
|
|
"version": "1.36.0",
|
|
"sha256": "1k7rhy3lqc52r4hg68r4rw0l31v37bsp2f8k8palia4bqzmqy375",
|
|
"depends": ["flowCore", "flowStats", "flowViz"]
|
|
},
|
|
"flowViz": {
|
|
"name": "flowViz",
|
|
"version": "1.68.0",
|
|
"sha256": "1iz4skfs68jg2a59kfaxllf19mp9pk9mpfc2jh3vyas14c3l3zzj",
|
|
"depends": ["Biobase", "IDPmisc", "KernSmooth", "MASS", "RColorBrewer", "flowCore", "hexbin", "lattice", "latticeExtra"]
|
|
},
|
|
"flowWorkspace": {
|
|
"name": "flowWorkspace",
|
|
"version": "4.16.0",
|
|
"sha256": "0k22hifg4sv0xiw983gf1d6y7zkn9072famwj72x47w8vag4i0xz",
|
|
"depends": ["BH", "Biobase", "BiocGenerics", "DelayedArray", "RBGL", "RProtoBufLib", "Rgraphviz", "Rhdf5lib", "S4Vectors", "XML", "cpp11", "cytolib", "data_table", "dplyr", "flowCore", "ggplot2", "graph", "matrixStats", "ncdfFlow", "scales"]
|
|
},
|
|
"flowcatchR": {
|
|
"name": "flowcatchR",
|
|
"version": "1.38.0",
|
|
"sha256": "0g9jza9gs526ch5sa9m91yrmf6n8l73052n41r2zvdwamzh9a6r9",
|
|
"depends": ["BiocParallel", "EBImage", "abind", "colorRamps", "plotly", "shiny"]
|
|
},
|
|
"fmcsR": {
|
|
"name": "fmcsR",
|
|
"version": "1.46.0",
|
|
"sha256": "080src34jwkvbk98pa4ri530l9gi4ibr5mwxib1681np0cfal54g",
|
|
"depends": ["BiocGenerics", "ChemmineR", "RUnit"]
|
|
},
|
|
"fmrs": {
|
|
"name": "fmrs",
|
|
"version": "1.14.0",
|
|
"sha256": "0vwj90snn2mjai762426c62m5rmmkywpvnjjgv9cns4azzbjqq4y",
|
|
"depends": ["survival"]
|
|
},
|
|
"fobitools": {
|
|
"name": "fobitools",
|
|
"version": "1.12.0",
|
|
"sha256": "0n9zckl2zx7hcqz94xa32frra7v11y4gss1wdcdicj2sm40k9hgq",
|
|
"depends": ["RecordLinkage", "clisymbols", "crayon", "dplyr", "fgsea", "ggplot2", "ggraph", "magrittr", "ontologyIndex", "purrr", "stringr", "textclean", "tictoc", "tidygraph", "tidyr", "vroom"]
|
|
},
|
|
"frenchFISH": {
|
|
"name": "frenchFISH",
|
|
"version": "1.16.0",
|
|
"sha256": "0lchnhchabj69ccw9pi1nz6l4k39kwin7cdyg9j5zq54i5lwzgg3",
|
|
"depends": ["MCMCpack", "NHPoisson"]
|
|
},
|
|
"frma": {
|
|
"name": "frma",
|
|
"version": "1.56.0",
|
|
"sha256": "0gg6hybrysqsd04dv3z7p1wx7zb35zk10f76c3yfhxg1wzv0f4wr",
|
|
"depends": ["Biobase", "BiocGenerics", "DBI", "MASS", "affy", "oligo", "oligoClasses", "preprocessCore"]
|
|
},
|
|
"frmaTools": {
|
|
"name": "frmaTools",
|
|
"version": "1.56.0",
|
|
"sha256": "0ksnk253vvxrfql6wgbzmm64173fqv2lcls83iv4lgihix978x5x",
|
|
"depends": ["Biobase", "DBI", "affy", "preprocessCore"]
|
|
},
|
|
"funtooNorm": {
|
|
"name": "funtooNorm",
|
|
"version": "1.28.0",
|
|
"sha256": "1immis03wkcgzfpb4jbb9zz58707g06mbrq15ls04fmf6mkjj8im",
|
|
"depends": ["GenomeInfoDb", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylation450kmanifest", "matrixStats", "minfi", "pls"]
|
|
},
|
|
"gCrisprTools": {
|
|
"name": "gCrisprTools",
|
|
"version": "2.10.0",
|
|
"sha256": "1h7qx8j46sqhkrdln7mbw38w7p3n6c8sw1311kk2pady0bw14hqh",
|
|
"depends": ["Biobase", "ComplexHeatmap", "RobustRankAggreg", "SummarizedExperiment", "ggplot2", "limma", "rmarkdown"]
|
|
},
|
|
"gDNAx": {
|
|
"name": "gDNAx",
|
|
"version": "1.2.1",
|
|
"sha256": "1fr5kyy2jhn2qia9wqd505kp9w5ad6d7bxvi5073m6rw1b7x6231",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicFiles", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "SummarizedExperiment", "bitops", "cli", "matrixStats", "plotrix"]
|
|
},
|
|
"gDR": {
|
|
"name": "gDR",
|
|
"version": "1.2.0",
|
|
"sha256": "0jhsnaabp8amljw8g64ly15nc10rjfsk5vd1pxpqq1fzyh72s1xa",
|
|
"depends": ["gDRcore", "gDRimport", "gDRutils"]
|
|
},
|
|
"gDRcore": {
|
|
"name": "gDRcore",
|
|
"version": "1.2.0",
|
|
"sha256": "14hnmym7pzgfm4gmvq0dc0bym3kpr769fcdpspvqyzgq3b5swbva",
|
|
"depends": ["BiocParallel", "BumpyMatrix", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "checkmate", "data_table", "futile_logger", "gDRutils", "purrr", "stringr"]
|
|
},
|
|
"gDRimport": {
|
|
"name": "gDRimport",
|
|
"version": "1.2.0",
|
|
"sha256": "1jfp3vgy2r0kmakn063bp1nrnwjfx2xxz0drkry5ghdmjig0g25y",
|
|
"depends": ["BumpyMatrix", "CoreGx", "MultiAssayExperiment", "PharmacoGx", "S4Vectors", "SummarizedExperiment", "XML", "assertthat", "checkmate", "data_table", "futile_logger", "gDRutils", "magrittr", "openxlsx", "readxl", "rio", "stringi", "tibble", "yaml"]
|
|
},
|
|
"gDRstyle": {
|
|
"name": "gDRstyle",
|
|
"version": "1.2.0",
|
|
"sha256": "0khl0h07ixcsdn984f60d7fshhbs755c6bcxqwk3rzl54xb9cmj8",
|
|
"depends": ["BiocCheck", "BiocManager", "checkmate", "desc", "git2r", "lintr", "pkgbuild", "rcmdcheck", "remotes", "rjson", "withr", "yaml"]
|
|
},
|
|
"gDRutils": {
|
|
"name": "gDRutils",
|
|
"version": "1.2.0",
|
|
"sha256": "0ql75k7aysf5kphjkajp2sshg953vx3nskg6qzhd8cc4lvldx9kq",
|
|
"depends": ["BiocParallel", "BumpyMatrix", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "checkmate", "data_table", "drc", "jsonlite", "jsonvalidate", "stringr"]
|
|
},
|
|
"gINTomics": {
|
|
"name": "gINTomics",
|
|
"version": "1.0.0",
|
|
"sha256": "0dscrxy846v5nv1fc0wfd5v7axwdhwpxhh0y9dwq25sdyfzknl8g",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "ComplexHeatmap", "DT", "GenomicFeatures", "GenomicRanges", "InteractiveComplexHeatmap", "MASS", "MultiAssayExperiment", "OmnipathR", "RColorBrewer", "ReactomePA", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg38_knownGene", "TxDb_Mmusculus_UCSC_mm10_knownGene", "biomaRt", "callr", "circlize", "clusterProfiler", "dplyr", "edgeR", "ggplot2", "ggridges", "ggtree", "ggvenn", "gtools", "limma", "org_Hs_eg_db", "org_Mm_eg_db", "plotly", "plyr", "randomForest", "reshape2", "shiny", "shiny_gosling", "shinydashboard", "stringi", "stringr", "visNetwork"]
|
|
},
|
|
"gaga": {
|
|
"name": "gaga",
|
|
"version": "2.50.0",
|
|
"sha256": "10qckg06yf44x1giisglw978l63c4p9bdlrfh8q0i7cb19zihbnf",
|
|
"depends": ["Biobase", "EBarrays", "coda", "mgcv"]
|
|
},
|
|
"gage": {
|
|
"name": "gage",
|
|
"version": "2.54.0",
|
|
"sha256": "0iwdv9y5x0na38arjqacz00s7plk7aqc1h2ynhlpbyl3nz0a0kyq",
|
|
"depends": ["AnnotationDbi", "GO_db", "KEGGREST", "graph"]
|
|
},
|
|
"garfield": {
|
|
"name": "garfield",
|
|
"version": "1.32.0",
|
|
"sha256": "0lcfqsv4ffsgnpsxdij5graaryvxqkyvsx7n6bkglclg1syr32dw",
|
|
"depends": []
|
|
},
|
|
"gatom": {
|
|
"name": "gatom",
|
|
"version": "1.2.0",
|
|
"sha256": "1cmhlhr2gkfgpgncr9dy3qq0q764vhr5c7zgpbnnvp5qg95y6n6g",
|
|
"depends": ["BioNet", "GGally", "XML", "data_table", "ggplot2", "htmltools", "htmlwidgets", "igraph", "intergraph", "network", "plyr", "pryr", "shinyCyJS", "sna"]
|
|
},
|
|
"gcapc": {
|
|
"name": "gcapc",
|
|
"version": "1.28.0",
|
|
"sha256": "0k6k73i1mv6pxkpy2mq3xr0rfpn8rqa5wj1hjx3r3dqpw4rv8izl",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "Rsamtools", "S4Vectors", "matrixStats"]
|
|
},
|
|
"gcatest": {
|
|
"name": "gcatest",
|
|
"version": "2.4.0",
|
|
"sha256": "1jdbiv0mh0kfxn05k349h192b32rzs65l7xjkiw1rpzca649fldn",
|
|
"depends": ["lfa"]
|
|
},
|
|
"gcrma": {
|
|
"name": "gcrma",
|
|
"version": "2.76.0",
|
|
"sha256": "01b9b4v19yh42552awl21yyx9vhf9yh9r3l8849x4zwjpnf6anp3",
|
|
"depends": ["Biobase", "BiocManager", "Biostrings", "XVector", "affy", "affyio"]
|
|
},
|
|
"gdsfmt": {
|
|
"name": "gdsfmt",
|
|
"version": "1.40.0",
|
|
"sha256": "1ska6q1800mmsxi6jilpnq4f6cy3vk0nb98gz3ik94lmbv2ram97",
|
|
"depends": []
|
|
},
|
|
"geNetClassifier": {
|
|
"name": "geNetClassifier",
|
|
"version": "1.44.0",
|
|
"sha256": "0jfczma8sh9dza105v306xr371f8mndndm6kw3ydgqlxd8zk3a6l",
|
|
"depends": ["Biobase", "EBarrays", "e1071", "minet"]
|
|
},
|
|
"gemini": {
|
|
"name": "gemini",
|
|
"version": "1.18.0",
|
|
"sha256": "1yfizm9hk7ak1lgf89zn7r768n82dzbiyd6fqrybhl1m4k5a8zh4",
|
|
"depends": ["dplyr", "ggplot2", "magrittr", "mixtools", "pbmcapply", "scales"]
|
|
},
|
|
"gemma_R": {
|
|
"name": "gemma.R",
|
|
"version": "3.0.14",
|
|
"sha256": "1psiag87wbg7g0jjpd6hy1b4jcr8hx6hflqa5p0nnkw6zxp5cxkk",
|
|
"depends": ["Biobase", "R_utils", "S4Vectors", "SummarizedExperiment", "assertthat", "base64enc", "bit64", "data_table", "digest", "glue", "httr", "jsonlite", "lubridate", "magrittr", "memoise", "rappdirs", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"genArise": {
|
|
"name": "genArise",
|
|
"version": "1.80.0",
|
|
"sha256": "0r5d1nw2bqvh3yivx73l2ln3y78kqsrvx3xm4sw61m48gszb69x5",
|
|
"depends": ["locfit", "tkrplot", "xtable"]
|
|
},
|
|
"geneAttribution": {
|
|
"name": "geneAttribution",
|
|
"version": "1.30.0",
|
|
"sha256": "0qzp9d1v88qamahl4knnv6adx863jpnhc5w0v9fpqliw04gqnczn",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "org_Hs_eg_db", "rtracklayer"]
|
|
},
|
|
"geneClassifiers": {
|
|
"name": "geneClassifiers",
|
|
"version": "1.28.0",
|
|
"sha256": "0zsjb7a30jvkskpg2awxxzdq2rnrpy2nrv89qrqq51h5blln4l2r",
|
|
"depends": ["Biobase", "BiocGenerics"]
|
|
},
|
|
"geneRecommender": {
|
|
"name": "geneRecommender",
|
|
"version": "1.76.0",
|
|
"sha256": "1vd04lqrqzfzjz2xpm0gd2gg38rvfz7c8ikz5ypr82mcbq3v7gfl",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"geneRxCluster": {
|
|
"name": "geneRxCluster",
|
|
"version": "1.40.0",
|
|
"sha256": "109ghiv5j33g35d7l71z8s7nc2vb997j5i6vh43nrrygsgc53ywm",
|
|
"depends": ["GenomicRanges", "IRanges"]
|
|
},
|
|
"geneXtendeR": {
|
|
"name": "geneXtendeR",
|
|
"version": "1.30.0",
|
|
"sha256": "06rmxlahnf0xiwvyfl6h9727g8cm24zk6p27j5bb4vln4phb81x7",
|
|
"depends": ["AnnotationDbi", "BiocStyle", "GO_db", "RColorBrewer", "SnowballC", "data_table", "dplyr", "networkD3", "org_Rn_eg_db", "rtracklayer", "tm", "wordcloud"]
|
|
},
|
|
"genefilter": {
|
|
"name": "genefilter",
|
|
"version": "1.86.0",
|
|
"sha256": "0jp7jvgzb1bs0p76j9k8lhgliipjnif6bng7hdn5wi744jb5fmpr",
|
|
"depends": ["AnnotationDbi", "Biobase", "MatrixGenerics", "annotate", "survival"]
|
|
},
|
|
"genefu": {
|
|
"name": "genefu",
|
|
"version": "2.36.0",
|
|
"sha256": "032xfs2vp0n0r3sz79fs0v8q28n2sqbnazfwkc3p9dwh4s7nqfwx",
|
|
"depends": ["AIMS", "amap", "biomaRt", "iC10", "impute", "limma", "mclust", "survcomp"]
|
|
},
|
|
"geneplast": {
|
|
"name": "geneplast",
|
|
"version": "1.30.0",
|
|
"sha256": "1z76dpa7cmzidw3512ynphrrqcqvbrp1bbl8bzcf3jsjdshy7mm7",
|
|
"depends": ["ape", "data_table", "igraph", "snow"]
|
|
},
|
|
"geneplotter": {
|
|
"name": "geneplotter",
|
|
"version": "1.82.0",
|
|
"sha256": "19znr3vwp20x84jiwy0im7s6vd8a71yng8w2ji88ffzq0xdkyyjm",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "RColorBrewer", "annotate", "lattice"]
|
|
},
|
|
"genoCN": {
|
|
"name": "genoCN",
|
|
"version": "1.56.0",
|
|
"sha256": "1nqxp99g3maxjip9mvpkdm2n6v5vmw7dnkni3nfv2azd12cl9ka1",
|
|
"depends": []
|
|
},
|
|
"genomation": {
|
|
"name": "genomation",
|
|
"version": "1.36.0",
|
|
"sha256": "1bfy46kka77q93s42hsbxpiynfkin5mh7cz3w592smw2dzkh01j4",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rcpp", "Rsamtools", "S4Vectors", "data_table", "ggplot2", "gridBase", "impute", "matrixStats", "plotrix", "plyr", "readr", "reshape2", "rtracklayer", "seqPattern"]
|
|
},
|
|
"genomeIntervals": {
|
|
"name": "genomeIntervals",
|
|
"version": "1.60.0",
|
|
"sha256": "1gyp2aa335gljb4igwg8c92m4rwwxwsv49dlj341gqphbx8b1vbr",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "intervals"]
|
|
},
|
|
"genomes": {
|
|
"name": "genomes",
|
|
"version": "3.34.0",
|
|
"sha256": "1qb4bpyz7z6yqz4xlrx7gq9afdpqdk0ax4aas5pzx1cqxq31yii9",
|
|
"depends": ["curl", "readr"]
|
|
},
|
|
"genomicInstability": {
|
|
"name": "genomicInstability",
|
|
"version": "1.10.0",
|
|
"sha256": "08clvnj3pfxr0y8n2bh55x7aqs8pa6kjy5w8si78r5k2ywwxxl5y",
|
|
"depends": ["SummarizedExperiment", "checkmate", "mixtools"]
|
|
},
|
|
"gep2pep": {
|
|
"name": "gep2pep",
|
|
"version": "1.24.0",
|
|
"sha256": "1i8m3k7l5ymx6c0d6hrl6c1yn2fjvvrrpsf08r64ksl750cvab87",
|
|
"depends": ["Biobase", "GSEABase", "XML", "digest", "foreach", "iterators", "repo", "rhdf5"]
|
|
},
|
|
"gespeR": {
|
|
"name": "gespeR",
|
|
"version": "1.36.0",
|
|
"sha256": "1c7pimggz4px7455frmg4fjbajl9pnw1wdi480wf0hcjfakk1i9h",
|
|
"depends": ["Biobase", "Matrix", "biomaRt", "cellHTS2", "doParallel", "dplyr", "foreach", "ggplot2", "glmnet", "reshape2"]
|
|
},
|
|
"getDEE2": {
|
|
"name": "getDEE2",
|
|
"version": "1.14.0",
|
|
"sha256": "1hkxyic2pjpxj5mbdf2lmkk7jm8ycmcjwychhy62qlvvcg58cd21",
|
|
"depends": ["SummarizedExperiment", "htm2txt"]
|
|
},
|
|
"geva": {
|
|
"name": "geva",
|
|
"version": "1.12.0",
|
|
"sha256": "1wbw8dqimfl6g57v9ix0c8hmyy0kkc33pwvi2ifrfsfcmr6gkv1x",
|
|
"depends": ["dbscan", "fastcluster", "matrixStats"]
|
|
},
|
|
"gg4way": {
|
|
"name": "gg4way",
|
|
"version": "1.2.0",
|
|
"sha256": "12hv274gsiym6ph83q3qphnl7bdh1j5af4g2hz8jvqrj1nbm34h8",
|
|
"depends": ["DESeq2", "dplyr", "edgeR", "ggplot2", "ggrepel", "glue", "janitor", "limma", "magrittr", "purrr", "rlang", "scales", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"ggbio": {
|
|
"name": "ggbio",
|
|
"version": "1.52.0",
|
|
"sha256": "0g6h1h8azy79pzm0g8967f58gp33nl8866b285ybq6501nj8pb1p",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "BSgenome", "Biobase", "BiocGenerics", "Biostrings", "GGally", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Hmisc", "IRanges", "OrganismDbi", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "biovizBase", "ensembldb", "ggplot2", "gridExtra", "gtable", "reshape2", "rlang", "rtracklayer", "scales"]
|
|
},
|
|
"ggcyto": {
|
|
"name": "ggcyto",
|
|
"version": "1.32.0",
|
|
"sha256": "0z4cfpylj2y3jcljzg15fpjnrhrpzgw49kcprq5sg4cxr96ia2rm",
|
|
"depends": ["RColorBrewer", "data_table", "flowCore", "flowWorkspace", "ggplot2", "gridExtra", "hexbin", "ncdfFlow", "plyr", "rlang", "scales"]
|
|
},
|
|
"ggkegg": {
|
|
"name": "ggkegg",
|
|
"version": "1.2.2",
|
|
"sha256": "0j77l3bzddmkf45v66zvhypramhv9fprv4rxz5r6vkjhabgyjdfb",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "GetoptLong", "XML", "data_table", "dplyr", "ggplot2", "ggraph", "gtable", "igraph", "magick", "org_Hs_eg_db", "patchwork", "shadowtext", "stringr", "tibble", "tidygraph"]
|
|
},
|
|
"ggmanh": {
|
|
"name": "ggmanh",
|
|
"version": "1.8.0",
|
|
"sha256": "0h7idg7s2s51gcd4fjbpad0kaq13xa5jxv34fwrw02285rl7zw7b",
|
|
"depends": ["RColorBrewer", "SeqArray", "gdsfmt", "ggplot2", "ggrepel", "rlang", "scales"]
|
|
},
|
|
"ggmsa": {
|
|
"name": "ggmsa",
|
|
"version": "1.10.0",
|
|
"sha256": "0pmy9aakp503aa3d9g96ajms153kphyr0shlnap5axxy6s99s2ak",
|
|
"depends": ["Biostrings", "R4RNA", "RColorBrewer", "aplot", "dplyr", "ggalt", "ggforce", "ggplot2", "ggtree", "magrittr", "seqmagick", "statebins", "tidyr"]
|
|
},
|
|
"ggsc": {
|
|
"name": "ggsc",
|
|
"version": "1.2.0",
|
|
"sha256": "1869xwlc4hqyzankrx3m7jara9am86pc8cw5lfdqfvf2ndp6ijdv",
|
|
"depends": ["RColorBrewer", "Rcpp", "RcppArmadillo", "RcppParallel", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "cli", "dplyr", "ggfun", "ggplot2", "rlang", "scales", "scattermore", "tibble", "tidydr", "tidyr", "yulab_utils"]
|
|
},
|
|
"ggspavis": {
|
|
"name": "ggspavis",
|
|
"version": "1.10.0",
|
|
"sha256": "0acbsbqnkl1xw9i3pgz1bibgzyvv52jzmyvnmggn5ag92ldd459c",
|
|
"depends": ["RColorBrewer", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "ggplot2", "ggrepel", "ggside", "scales"]
|
|
},
|
|
"ggtree": {
|
|
"name": "ggtree",
|
|
"version": "3.12.0",
|
|
"sha256": "1bm7c46k8qbajjvl8475b7fcd0dvg9s1bir8313qgm466qm6immh",
|
|
"depends": ["ape", "aplot", "cli", "dplyr", "ggfun", "ggplot2", "magrittr", "purrr", "rlang", "scales", "tidyr", "tidytree", "treeio", "yulab_utils"]
|
|
},
|
|
"ggtreeDendro": {
|
|
"name": "ggtreeDendro",
|
|
"version": "1.6.0",
|
|
"sha256": "1p7gxcaadlvh54y5j82yqarwz6jfhlzi6k6p0zmxxi17s70202x6",
|
|
"depends": ["ggplot2", "ggtree", "tidytree"]
|
|
},
|
|
"ggtreeExtra": {
|
|
"name": "ggtreeExtra",
|
|
"version": "1.14.0",
|
|
"sha256": "1wy229rnp356hi144flm9fvhv414jxmxc967f7pyqwl4abiwlmzm",
|
|
"depends": ["cli", "ggnewscale", "ggplot2", "ggtree", "magrittr", "rlang", "tidytree"]
|
|
},
|
|
"ggtreeSpace": {
|
|
"name": "ggtreeSpace",
|
|
"version": "1.0.0",
|
|
"sha256": "0ny22m469mnr70ipwy6brch1g5vklk5i0qkbgbpwrsdvi6vkibsr",
|
|
"depends": ["GGally", "ape", "dplyr", "ggplot2", "ggtree", "interp", "phytools", "rlang", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"ginmappeR": {
|
|
"name": "ginmappeR",
|
|
"version": "1.0.4",
|
|
"sha256": "0s13z3naarspmdp9v82xjxqqhxygcsvw5vq6l1lmhj070fg8b9nz",
|
|
"depends": ["KEGGREST", "UniProt_ws", "XML", "cachem", "httr", "jsonlite", "memoise", "rentrez", "rvest"]
|
|
},
|
|
"girafe": {
|
|
"name": "girafe",
|
|
"version": "1.56.0",
|
|
"sha256": "17ma5xfqzy19cigim0bqkqvwln3qji2f5x4qwb74i40j2lbqn9qi",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "genomeIntervals", "intervals", "pwalign"]
|
|
},
|
|
"glmGamPoi": {
|
|
"name": "glmGamPoi",
|
|
"version": "1.16.0",
|
|
"sha256": "1my8v0zx5xsxjf8dj2yw92b8zp725hxhb2vrl5ccgz2w9xkn0dkj",
|
|
"depends": ["BiocGenerics", "DelayedArray", "DelayedMatrixStats", "HDF5Array", "MatrixGenerics", "Rcpp", "RcppArmadillo", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "matrixStats", "rlang", "vctrs"]
|
|
},
|
|
"glmSparseNet": {
|
|
"name": "glmSparseNet",
|
|
"version": "1.22.0",
|
|
"sha256": "1yyl2i3f5s1l5q17471zwlj9cksbsnkv227qdlsgvzl0i9sh4m2h",
|
|
"depends": ["Matrix", "MultiAssayExperiment", "SummarizedExperiment", "TCGAutils", "biomaRt", "checkmate", "dplyr", "forcats", "futile_logger", "ggplot2", "glmnet", "glue", "httr", "lifecycle", "readr", "rlang", "survminer"]
|
|
},
|
|
"globalSeq": {
|
|
"name": "globalSeq",
|
|
"version": "1.32.0",
|
|
"sha256": "0jqi2jld7s4krvk0i3rzc7m5h4rvja8zbjvdjw0ck425p180m3wb",
|
|
"depends": []
|
|
},
|
|
"globaltest": {
|
|
"name": "globaltest",
|
|
"version": "5.58.0",
|
|
"sha256": "1cpvs1jcp9ibis06pkbqvhhksy6cis0zynx774d0hqdbb9ljl945",
|
|
"depends": ["AnnotationDbi", "Biobase", "annotate", "survival"]
|
|
},
|
|
"gmapR": {
|
|
"name": "gmapR",
|
|
"version": "1.46.0",
|
|
"sha256": "0zmn3gj5aamrkx0pa15fd2n2l7i0z8fkr4i2b9i50qgp7b46yv03",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "VariantAnnotation", "rtracklayer"]
|
|
},
|
|
"gmoviz": {
|
|
"name": "gmoviz",
|
|
"version": "1.16.0",
|
|
"sha256": "01znh8vfhqyls6f1y0zl3hnp67j4q6gzf6fjv3dx214ks6h3vk47",
|
|
"depends": ["BiocGenerics", "Biostrings", "ComplexHeatmap", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "circlize", "colorspace", "gridBase", "pracma", "rtracklayer"]
|
|
},
|
|
"goProfiles": {
|
|
"name": "goProfiles",
|
|
"version": "1.66.0",
|
|
"sha256": "1yj9002d99rpsqgxj4wibzmykjpl5091g1aymshkgxqcf456pq14",
|
|
"depends": ["AnnotationDbi", "Biobase", "CompQuadForm", "GO_db", "stringr"]
|
|
},
|
|
"goSTAG": {
|
|
"name": "goSTAG",
|
|
"version": "1.28.0",
|
|
"sha256": "195vdjaxq8xwyz5ib9csk0a1fw6l9pzkpji78l3pbh9p5clw5592",
|
|
"depends": ["AnnotationDbi", "GO_db", "biomaRt", "memoise"]
|
|
},
|
|
"goSorensen": {
|
|
"name": "goSorensen",
|
|
"version": "1.6.0",
|
|
"sha256": "1n0i9xmdxnh52lg60klblgi6bzfa910p4ajavir725p84hbqxdjh",
|
|
"depends": ["GO_db", "clusterProfiler", "goProfiles", "org_Hs_eg_db", "stringr"]
|
|
},
|
|
"goTools": {
|
|
"name": "goTools",
|
|
"version": "1.78.0",
|
|
"sha256": "17xpmlsy35a72mbk5c3am85ihgdbwzzaspkb2cfnww9gcnsk6is5",
|
|
"depends": ["AnnotationDbi", "GO_db"]
|
|
},
|
|
"goseq": {
|
|
"name": "goseq",
|
|
"version": "1.56.0",
|
|
"sha256": "0bc7dcpz0agbc42f8agf05amyhpavz55fdp622if5af5dn1ww6pr",
|
|
"depends": ["AnnotationDbi", "BiasedUrn", "BiocGenerics", "GO_db", "geneLenDataBase", "mgcv"]
|
|
},
|
|
"gpls": {
|
|
"name": "gpls",
|
|
"version": "1.76.0",
|
|
"sha256": "0n2m4himkdzazshiwvxybp5rr1d6jsg60lc5dbsk40grra3w2g4m",
|
|
"depends": []
|
|
},
|
|
"gpuMagic": {
|
|
"name": "gpuMagic",
|
|
"version": "1.20.0",
|
|
"sha256": "06ga6xkk95kgnzgy95kzysz8nim9v9aq2s6742hhknjndhy59n28",
|
|
"depends": ["BiocGenerics", "Deriv", "DescTools", "Rcpp", "digest", "pryr", "stringr"]
|
|
},
|
|
"granulator": {
|
|
"name": "granulator",
|
|
"version": "1.12.0",
|
|
"sha256": "0757xhxn3156687nz8dksqqs0ifafrdwz0am532pw3xf5hirdz81",
|
|
"depends": ["MASS", "cowplot", "dplyr", "dtangle", "e1071", "epiR", "ggplot2", "ggplotify", "limSolve", "magrittr", "nnls", "pheatmap", "purrr", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"graper": {
|
|
"name": "graper",
|
|
"version": "1.20.0",
|
|
"sha256": "1hczvcv3kxzbxigbcxmsiwadxbwldipsv7slmsyznrkpwws4liwi",
|
|
"depends": ["BH", "Matrix", "Rcpp", "RcppArmadillo", "cowplot", "ggplot2", "matrixStats"]
|
|
},
|
|
"graph": {
|
|
"name": "graph",
|
|
"version": "1.82.0",
|
|
"sha256": "1wa10s9a8p6lajim1lbw4rxyc4fz7y6fpymrh0c0ip85971cd9hv",
|
|
"depends": ["BiocGenerics"]
|
|
},
|
|
"graphite": {
|
|
"name": "graphite",
|
|
"version": "1.50.0",
|
|
"sha256": "1xymgghgj4r1k9i73zqgava79l0djz945jnl5ad193flv13fpdgs",
|
|
"depends": ["AnnotationDbi", "graph", "httr", "purrr", "rappdirs", "rlang"]
|
|
},
|
|
"groHMM": {
|
|
"name": "groHMM",
|
|
"version": "1.38.0",
|
|
"sha256": "1vmck9ridjjk22477sv8wx0x7n5irrsaf6nsh9lm3krk4i3iv715",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "rtracklayer"]
|
|
},
|
|
"gscreend": {
|
|
"name": "gscreend",
|
|
"version": "1.18.0",
|
|
"sha256": "1y41rai3hhp290ga0ddcgs0jyri4aavcbyycs8z887h787sbihrn",
|
|
"depends": ["BiocParallel", "SummarizedExperiment", "fGarch", "nloptr"]
|
|
},
|
|
"gsean": {
|
|
"name": "gsean",
|
|
"version": "1.24.0",
|
|
"sha256": "14b4fg51j995af4i8lx84908jnlhw1y7j01871iy80s13d8nnz9b",
|
|
"depends": ["PPInfer", "fgsea"]
|
|
},
|
|
"gtrellis": {
|
|
"name": "gtrellis",
|
|
"version": "1.36.0",
|
|
"sha256": "1qlsjpjxcw96qhrqjlbbinpry9yagn50jc3dnz459dbfvnywr82q",
|
|
"depends": ["GenomicRanges", "GetoptLong", "IRanges", "circlize"]
|
|
},
|
|
"gwascat": {
|
|
"name": "gwascat",
|
|
"version": "2.36.0",
|
|
"sha256": "08b70drlasws3h9d8iznaxxp0qf4n1fi943m4yngy1c65h3a30rc",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocFileCache", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "VariantAnnotation", "readr", "snpStats"]
|
|
},
|
|
"gwasurvivr": {
|
|
"name": "gwasurvivr",
|
|
"version": "1.22.0",
|
|
"sha256": "0d9a9lrdpizh0bayq5yhqrssarbk90afn9s3cbkdxjrjgvlcair7",
|
|
"depends": ["GWASTools", "SNPRelate", "SummarizedExperiment", "VariantAnnotation", "matrixStats", "survival"]
|
|
},
|
|
"gypsum": {
|
|
"name": "gypsum",
|
|
"version": "1.0.1",
|
|
"sha256": "1zrmxmlnbiifc2p5mn10y3vpmyzqjimd2hvc3s9c0j0iv6ryxjv0",
|
|
"depends": ["filelock", "httr2", "jsonlite"]
|
|
},
|
|
"h5vc": {
|
|
"name": "h5vc",
|
|
"version": "2.38.0",
|
|
"sha256": "0nv6x14adjwz7izsfyirnr13k9aa5kh34nqq9p4lawxa76d0bv4p",
|
|
"depends": ["BatchJobs", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rhtslib", "Rsamtools", "S4Vectors", "abind", "ggplot2", "gridExtra", "h5vcData", "reshape", "rhdf5"]
|
|
},
|
|
"hapFabia": {
|
|
"name": "hapFabia",
|
|
"version": "1.46.0",
|
|
"sha256": "0vqfljpdlsdnq0ms98ar2niy5yrlmixlwvaq5ynfvsrpr8hj4wwq",
|
|
"depends": ["Biobase", "fabia"]
|
|
},
|
|
"hca": {
|
|
"name": "hca",
|
|
"version": "1.12.0",
|
|
"sha256": "143np5y93b3ik5lrjiz7hhwwp89hq8h9ygvprydwcvn6k530111r",
|
|
"depends": ["BiocFileCache", "DT", "digest", "dplyr", "httr", "jsonlite", "miniUI", "readr", "shiny", "tibble", "tidyr"]
|
|
},
|
|
"hdxmsqc": {
|
|
"name": "hdxmsqc",
|
|
"version": "1.0.1",
|
|
"sha256": "1ynjkwzfa84p2hg56nimbhfpw9ayah23lw8nb0mhkkqvb50nar19",
|
|
"depends": ["BiocStyle", "MsCoreUtils", "QFeatures", "S4Vectors", "Spectra", "dplyr", "ggplot2", "knitr", "tidyr"]
|
|
},
|
|
"heatmaps": {
|
|
"name": "heatmaps",
|
|
"version": "1.28.0",
|
|
"sha256": "0295lsiicwcdsnm1annyix7na6xipmvany8qpqwi4d87i5z2imhw",
|
|
"depends": ["BiocGenerics", "Biostrings", "EBImage", "GenomeInfoDb", "GenomicRanges", "IRanges", "KernSmooth", "Matrix", "RColorBrewer", "plotrix"]
|
|
},
|
|
"hermes": {
|
|
"name": "hermes",
|
|
"version": "1.8.1",
|
|
"sha256": "0mm9lvpgzbpcdbwks3ly7q4pl3w596jcin1c23mkvsj7gfh6r4nl",
|
|
"depends": ["Biobase", "BiocGenerics", "ComplexHeatmap", "DESeq2", "EnvStats", "GenomicRanges", "IRanges", "MultiAssayExperiment", "R6", "Rdpack", "S4Vectors", "SummarizedExperiment", "assertthat", "biomaRt", "checkmate", "circlize", "dplyr", "edgeR", "forcats", "ggfortify", "ggplot2", "ggrepel", "lifecycle", "limma", "magrittr", "matrixStats", "purrr", "rlang", "tidyr"]
|
|
},
|
|
"hiAnnotator": {
|
|
"name": "hiAnnotator",
|
|
"version": "1.38.0",
|
|
"sha256": "1mi15zpqbsf1x2bdagnd7mwspz7pdiq8v7s6a44zwxl0sas2qdmi",
|
|
"depends": ["BSgenome", "GenomicRanges", "dplyr", "foreach", "ggplot2", "iterators", "rtracklayer", "scales"]
|
|
},
|
|
"hiReadsProcessor": {
|
|
"name": "hiReadsProcessor",
|
|
"version": "1.40.0",
|
|
"sha256": "11hiz5ymjyjmsr78060602xi07lbjsq7gs4nh0pknjph2mzx9nqi",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomicAlignments", "GenomicRanges", "dplyr", "hiAnnotator", "pwalign", "readxl", "sonicLength"]
|
|
},
|
|
"hicVennDiagram": {
|
|
"name": "hicVennDiagram",
|
|
"version": "1.2.0",
|
|
"sha256": "02ym5qiz38viddsrxmn3v6q791gwrc36hi505vcaar1fj2kblx2w",
|
|
"depends": ["ComplexUpset", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "S4Vectors", "eulerr", "ggplot2", "htmlwidgets", "reshape2", "rtracklayer", "svglite"]
|
|
},
|
|
"hierGWAS": {
|
|
"name": "hierGWAS",
|
|
"version": "1.34.0",
|
|
"sha256": "140s7wvl1yl66yymq4vsiq0zb44nzjkip4x7l720lywmsj62v9zp",
|
|
"depends": ["fastcluster", "fmsb", "glmnet"]
|
|
},
|
|
"hierinf": {
|
|
"name": "hierinf",
|
|
"version": "1.22.0",
|
|
"sha256": "1x5piwk5y2z9nxfwnvcp60sqg9l0vi2q6rxhxr4r439c9vqgfm4w",
|
|
"depends": ["fmsb", "glmnet"]
|
|
},
|
|
"hipathia": {
|
|
"name": "hipathia",
|
|
"version": "3.4.0",
|
|
"sha256": "140ihldl1m7b249d184f717w9pycrsrx13gzjhamjvpdrn96hra4",
|
|
"depends": ["AnnotationHub", "DelayedArray", "MetBrewer", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "coin", "dplyr", "ggplot2", "ggpubr", "igraph", "limma", "matrixStats", "preprocessCore", "reshape2", "servr", "tibble", "visNetwork"]
|
|
},
|
|
"hmdbQuery": {
|
|
"name": "hmdbQuery",
|
|
"version": "1.24.0",
|
|
"sha256": "16mx6xhpxgajyglayzhgyv15m5mwggc141rkz4694l5923p3xzg8",
|
|
"depends": ["S4Vectors", "XML"]
|
|
},
|
|
"hoodscanR": {
|
|
"name": "hoodscanR",
|
|
"version": "1.2.0",
|
|
"sha256": "1dqmj5nisrndkldsa2qhy50a2bckvvyf96hcya6yqcvz6hb3w7d0",
|
|
"depends": ["ComplexHeatmap", "RANN", "Rcpp", "SpatialExperiment", "SummarizedExperiment", "circlize", "ggplot2", "knitr", "rlang", "rmarkdown", "scico"]
|
|
},
|
|
"hopach": {
|
|
"name": "hopach",
|
|
"version": "2.64.0",
|
|
"sha256": "0i0p73arx8fyxq76plvpk61hpmwbmwm62ninkmx1dlbr2jzvzysx",
|
|
"depends": ["Biobase", "BiocGenerics", "cluster"]
|
|
},
|
|
"hpar": {
|
|
"name": "hpar",
|
|
"version": "1.46.0",
|
|
"sha256": "1qqa0p8k3h8pbbgfz9d1k08zml5i5r9iwi2xqqj1hg84n2saqkzp",
|
|
"depends": ["ExperimentHub"]
|
|
},
|
|
"hummingbird": {
|
|
"name": "hummingbird",
|
|
"version": "1.14.0",
|
|
"sha256": "1l8i7mhagysjxsnl4lhr31hi2v6xi4rxam5dhd24hrz8m867199p",
|
|
"depends": ["GenomicRanges", "IRanges", "Rcpp", "SummarizedExperiment"]
|
|
},
|
|
"hypeR": {
|
|
"name": "hypeR",
|
|
"version": "2.2.0",
|
|
"sha256": "0qsz1fklbwlzlm6fk1xr27gv7ynvqgpzd3s8657pv79q2f7wkljf",
|
|
"depends": ["BiocStyle", "R6", "dplyr", "ggforce", "ggplot2", "htmltools", "httr", "igraph", "kableExtra", "magrittr", "msigdbr", "openxlsx", "purrr", "reactable", "reshape2", "rlang", "rmarkdown", "scales", "shiny", "stringr", "visNetwork"]
|
|
},
|
|
"hyperdraw": {
|
|
"name": "hyperdraw",
|
|
"version": "1.56.0",
|
|
"sha256": "104xwij9vq5gwq4ml7fnhsp4apcldbgxmhppwklg6zqdfixpmig5",
|
|
"depends": ["Rgraphviz", "graph", "hypergraph"]
|
|
},
|
|
"hypergraph": {
|
|
"name": "hypergraph",
|
|
"version": "1.76.0",
|
|
"sha256": "12g33rw1qy1ij32k87qrw04pak20p8z04mch9lxjy5yrj5k5x812",
|
|
"depends": ["graph"]
|
|
},
|
|
"iASeq": {
|
|
"name": "iASeq",
|
|
"version": "1.48.0",
|
|
"sha256": "0jaa4y13c6ra5axfw07g9pvmzybmyf3l2f6jya4cg9inqxvircv6",
|
|
"depends": []
|
|
},
|
|
"iBBiG": {
|
|
"name": "iBBiG",
|
|
"version": "1.48.0",
|
|
"sha256": "1vysyhayxls2vpll48gskw82aizjhyqbf234j1say13kjnnn8fb3",
|
|
"depends": ["ade4", "biclust", "xtable"]
|
|
},
|
|
"iBMQ": {
|
|
"name": "iBMQ",
|
|
"version": "1.44.0",
|
|
"sha256": "11i8fzf2i84x36xmq3dwndhvqgbrcj48p3ambn643r9pp27vmpdm",
|
|
"depends": ["Biobase", "ggplot2"]
|
|
},
|
|
"iCARE": {
|
|
"name": "iCARE",
|
|
"version": "1.32.0",
|
|
"sha256": "0m6cfcpviw1fxcg73zzjv1s8ynx47x2mfdpydsnkwfvc3r536xca",
|
|
"depends": ["Hmisc", "gtools", "plotrix"]
|
|
},
|
|
"iCNV": {
|
|
"name": "iCNV",
|
|
"version": "1.24.0",
|
|
"sha256": "08kqlpzkjd8m87n9yjdw0jmxdv7d90rh8s2rbmpywcs74qcrdq62",
|
|
"depends": ["CODEX", "data_table", "dplyr", "fields", "ggplot2", "rlang", "tidyr", "truncnorm"]
|
|
},
|
|
"iCOBRA": {
|
|
"name": "iCOBRA",
|
|
"version": "1.32.0",
|
|
"sha256": "1m3awsz8h3gbi82an73kbxcsch2gl737zaanckl1vq2ghymqykrp",
|
|
"depends": ["DT", "ROCR", "UpSetR", "dplyr", "ggplot2", "limma", "markdown", "reshape2", "rlang", "scales", "shiny", "shinyBS", "shinydashboard"]
|
|
},
|
|
"iCheck": {
|
|
"name": "iCheck",
|
|
"version": "1.34.0",
|
|
"sha256": "1yz4f8cs8vna8rq3064md37mgidg4nzn2204zzbbpnwsx23mz1mc",
|
|
"depends": ["Biobase", "GeneSelectMMD", "MASS", "affy", "gplots", "limma", "lmtest", "lumi", "preprocessCore", "randomForest", "rgl", "scatterplot3d"]
|
|
},
|
|
"iChip": {
|
|
"name": "iChip",
|
|
"version": "1.58.0",
|
|
"sha256": "13qzd4f3iskf8g0l3d7bi22kp0mp5hpfidjvyxzi5zyx787vpaw2",
|
|
"depends": ["limma"]
|
|
},
|
|
"iClusterPlus": {
|
|
"name": "iClusterPlus",
|
|
"version": "1.40.0",
|
|
"sha256": "01rf4w2p1qw4hk9shsdaffyz9g91vffcn4qi1dllsrn3m8pyd1gm",
|
|
"depends": []
|
|
},
|
|
"iGC": {
|
|
"name": "iGC",
|
|
"version": "1.34.0",
|
|
"sha256": "1xn04rv4p5aqvb4f696kfpcpyn4iqvryhgc84a8pk29yfx1hk38p",
|
|
"depends": ["data_table", "plyr"]
|
|
},
|
|
"iNETgrate": {
|
|
"name": "iNETgrate",
|
|
"version": "1.2.0",
|
|
"sha256": "1lsj5lwwfr4h1n1nlgnbncrgsy4mzhj5lzygcb691fkvk84ki09p",
|
|
"depends": ["BiocStyle", "GenomicRanges", "Homo_sapiens", "Pigengene", "Rfast", "SummarizedExperiment", "WGCNA", "caret", "glmnet", "gplots", "igraph", "matrixStats", "minfi", "survival", "tidyr", "tidyselect"]
|
|
},
|
|
"iPAC": {
|
|
"name": "iPAC",
|
|
"version": "1.48.0",
|
|
"sha256": "083lnwvc9b0w0gv21z2pcf4xvplz9alp6whv7ls1h8bgill4vc2a",
|
|
"depends": ["Biostrings", "gdata", "multtest", "pwalign", "scatterplot3d"]
|
|
},
|
|
"iPath": {
|
|
"name": "iPath",
|
|
"version": "1.10.0",
|
|
"sha256": "0dh57yif0wcapr54ba9ln45s9s9m52rzfgapz429i40dqbbc518v",
|
|
"depends": ["BiocParallel", "Rcpp", "RcppArmadillo", "ggplot2", "ggpubr", "matrixStats", "mclust", "survival", "survminer"]
|
|
},
|
|
"iSEE": {
|
|
"name": "iSEE",
|
|
"version": "2.16.0",
|
|
"sha256": "0rkk8n0hwmbqlnmjcdcljbsqqmbgw4x5cyjl5fndvzjs6xls4fal",
|
|
"depends": ["BiocGenerics", "ComplexHeatmap", "DT", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circlize", "colourpicker", "ggplot2", "ggrepel", "igraph", "listviewer", "mgcv", "rintrojs", "shiny", "shinyAce", "shinyWidgets", "shinydashboard", "shinyjs", "vipor", "viridisLite"]
|
|
},
|
|
"iSEEde": {
|
|
"name": "iSEEde",
|
|
"version": "1.2.0",
|
|
"sha256": "1fm7nav15kh2sn8lcgnywacsnv5z9mirv3vjvkk298141gdvnyiv",
|
|
"depends": ["DESeq2", "S4Vectors", "SummarizedExperiment", "edgeR", "iSEE", "shiny"]
|
|
},
|
|
"iSEEfier": {
|
|
"name": "iSEEfier",
|
|
"version": "1.0.0",
|
|
"sha256": "0qg64qp2b3c5l11xa1hb8whvshv9xdi27da2j447jxa81r42xgyh",
|
|
"depends": ["BiocBaseUtils", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "iSEE", "iSEEu", "igraph", "rlang", "visNetwork"]
|
|
},
|
|
"iSEEhex": {
|
|
"name": "iSEEhex",
|
|
"version": "1.6.0",
|
|
"sha256": "0lwifv4bpb8hp0y5d2fphzclf3c223x015bc7jj92kmpzl0hg41h",
|
|
"depends": ["SummarizedExperiment", "ggplot2", "hexbin", "iSEE", "shiny"]
|
|
},
|
|
"iSEEhub": {
|
|
"name": "iSEEhub",
|
|
"version": "1.6.0",
|
|
"sha256": "0pwplhddy3nyszzbkjrv79kypc50pxr7jckfjdd0qy10v16314id",
|
|
"depends": ["AnnotationHub", "BiocManager", "DT", "ExperimentHub", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "iSEE", "rintrojs", "shiny", "shinydashboard", "shinyjs"]
|
|
},
|
|
"iSEEindex": {
|
|
"name": "iSEEindex",
|
|
"version": "1.2.0",
|
|
"sha256": "0v8fww0rbldg6hdqyg9cfrsisahpwmc7q6pk156gz497av8gz250",
|
|
"depends": ["BiocFileCache", "DT", "SingleCellExperiment", "SummarizedExperiment", "iSEE", "paws_storage", "rintrojs", "shiny", "shinydashboard", "shinyjs", "stringr", "urltools"]
|
|
},
|
|
"iSEEpathways": {
|
|
"name": "iSEEpathways",
|
|
"version": "1.2.0",
|
|
"sha256": "168abrcfrrcnaz50lgkfqvap30xq63fjp61v365ar5zsh7qvys41",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "ggplot2", "iSEE", "shiny", "shinyWidgets"]
|
|
},
|
|
"iSEEu": {
|
|
"name": "iSEEu",
|
|
"version": "1.16.0",
|
|
"sha256": "10l539zk0xha45h58j5y9sl0fmpr7vxy30n6xa54lbs3fs324jyv",
|
|
"depends": ["DT", "IRanges", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "colourpicker", "ggplot2", "iSEE", "iSEEhex", "shiny", "shinyAce"]
|
|
},
|
|
"iSeq": {
|
|
"name": "iSeq",
|
|
"version": "1.56.0",
|
|
"sha256": "1jjp852ajk37m9rp1j1c3jlng450az54dx8ayl0whjcsr2ljw7hn",
|
|
"depends": []
|
|
},
|
|
"iasva": {
|
|
"name": "iasva",
|
|
"version": "1.22.0",
|
|
"sha256": "14p159ffi41lg56kjc2yafrxd8d0miqnavdnbspaal8l6r4qr10y",
|
|
"depends": ["BiocParallel", "SummarizedExperiment", "cluster", "irlba"]
|
|
},
|
|
"ibh": {
|
|
"name": "ibh",
|
|
"version": "1.52.0",
|
|
"sha256": "1xwcvj5zaax3z7c8nnlrmg1bj1wjrrpx5fg5zknhfkv96ycvbk5s",
|
|
"depends": ["simpIntLists"]
|
|
},
|
|
"icetea": {
|
|
"name": "icetea",
|
|
"version": "1.22.0",
|
|
"sha256": "0l204ak1br5xhlmp21v4qxc5fzrpg74ylaac63dvvhpkhphl51iz",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "DESeq2", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "TxDb_Dmelanogaster_UCSC_dm6_ensGene", "VariantAnnotation", "csaw", "edgeR", "ggplot2", "limma", "rtracklayer"]
|
|
},
|
|
"ideal": {
|
|
"name": "ideal",
|
|
"version": "1.28.0",
|
|
"sha256": "1fmqawzlg7dzhb6imsq9wjb3i4qr91f6aj4n4akpkrky7djdn3p2",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "DESeq2", "DT", "GO_db", "GOstats", "GenomicRanges", "IHW", "IRanges", "S4Vectors", "SummarizedExperiment", "UpSetR", "base64enc", "dplyr", "ggplot2", "ggrepel", "goseq", "gplots", "heatmaply", "knitr", "limma", "pcaExplorer", "pheatmap", "plotly", "rentrez", "rintrojs", "rlang", "rmarkdown", "shiny", "shinyAce", "shinyBS", "shinydashboard", "stringr", "topGO"]
|
|
},
|
|
"idiogram": {
|
|
"name": "idiogram",
|
|
"version": "1.80.0",
|
|
"sha256": "0hhgxsc4lk2lpi7ih1z72n4ly8kh8pj9j3w79x7nn0jha5krjv48",
|
|
"depends": ["Biobase", "annotate", "plotrix"]
|
|
},
|
|
"idpr": {
|
|
"name": "idpr",
|
|
"version": "1.14.0",
|
|
"sha256": "1g6g1265ncwlz4qz3w2v66jimx68pwmlzn8yw94pm242c2ikyn78",
|
|
"depends": ["Biostrings", "dplyr", "ggplot2", "jsonlite", "magrittr", "plyr", "rlang"]
|
|
},
|
|
"idr2d": {
|
|
"name": "idr2d",
|
|
"version": "1.18.0",
|
|
"sha256": "1c1x9nazmapdk820i3k2b4b956zy5ym333y2fjxg9nqfsvq153mn",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "dplyr", "futile_logger", "ggplot2", "idr", "magrittr", "reticulate", "scales", "stringr"]
|
|
},
|
|
"igvR": {
|
|
"name": "igvR",
|
|
"version": "1.24.0",
|
|
"sha256": "0rkps3zj1zg8rksyrnp94xvasgrlvwnq4fqgkrhr8wn0jcqkpna1",
|
|
"depends": ["BiocGenerics", "BrowserViz", "GenomicAlignments", "GenomicRanges", "RColorBrewer", "VariantAnnotation", "httpuv", "httr", "rtracklayer"]
|
|
},
|
|
"igvShiny": {
|
|
"name": "igvShiny",
|
|
"version": "1.0.1",
|
|
"sha256": "02n15bi9qxs5q1ripnvhjk4m9k9rwahi1dbwh4ym85aqjzxqpqks",
|
|
"depends": ["BiocGenerics", "GenomeInfoDbData", "GenomicRanges", "RCurl", "checkmate", "futile_logger", "htmlwidgets", "httr", "jsonlite", "randomcoloR", "shiny"]
|
|
},
|
|
"illuminaio": {
|
|
"name": "illuminaio",
|
|
"version": "0.46.0",
|
|
"sha256": "0l3n1plz5nvday0a1bm8173mikpfjbzrb1bp8yfvafy7lav4dsyv",
|
|
"depends": ["base64"]
|
|
},
|
|
"imcRtools": {
|
|
"name": "imcRtools",
|
|
"version": "1.10.0",
|
|
"sha256": "0wp5f0lrxi2f7kvdqqjl6gdhybcipppg3mr25r9zsfbaxf5d0160",
|
|
"depends": ["BiocNeighbors", "BiocParallel", "DT", "EBImage", "MatrixGenerics", "RTriangle", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "abind", "concaveman", "cytomapper", "data_table", "distances", "dplyr", "ggplot2", "ggraph", "igraph", "magrittr", "pheatmap", "readr", "rlang", "scuttle", "sf", "stringr", "tidygraph", "tidyselect", "viridis", "vroom"]
|
|
},
|
|
"immunoClust": {
|
|
"name": "immunoClust",
|
|
"version": "1.36.0",
|
|
"sha256": "00bshq0plfnh20117q9020gsyr65z1sfvmki8nbcz3ay6hq3rpm3",
|
|
"depends": ["flowCore", "lattice"]
|
|
},
|
|
"immunotation": {
|
|
"name": "immunotation",
|
|
"version": "1.12.0",
|
|
"sha256": "0g9yfm8kbcbfmb0xf1sqqv15h4ji0hya7p8j3czr2bc0gvmmka6q",
|
|
"depends": ["curl", "ggplot2", "maps", "ontologyIndex", "readr", "rlang", "rvest", "stringr", "tidyr", "xml2"]
|
|
},
|
|
"impute": {
|
|
"name": "impute",
|
|
"version": "1.78.0",
|
|
"sha256": "1g0m9298srkhjnq3mc5rd7krr9y3cy74yvg9k0j7ypc9nmgcqabr",
|
|
"depends": []
|
|
},
|
|
"infercnv": {
|
|
"name": "infercnv",
|
|
"version": "1.20.0",
|
|
"sha256": "1fi89fqzzb9n2c9jchkkgy3yq2fvisjcdavh9r455vmy0xqsyyyd",
|
|
"depends": ["BiocGenerics", "HiddenMarkov", "Matrix", "RANN", "RColorBrewer", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "ape", "argparse", "caTools", "coda", "coin", "digest", "doParallel", "dplyr", "edgeR", "fastcluster", "fitdistrplus", "foreach", "futile_logger", "future", "ggplot2", "gplots", "gridExtra", "igraph", "parallelDist", "phyclust", "reshape2", "rjags", "tidyr"]
|
|
},
|
|
"infinityFlow": {
|
|
"name": "infinityFlow",
|
|
"version": "1.14.0",
|
|
"sha256": "112pnwg13wq9cw0lyl170pfby2kaaz2nm22gfwclf7hccnd9a46z",
|
|
"depends": ["Biobase", "flowCore", "generics", "gtools", "matlab", "pbapply", "png", "raster", "uwot", "xgboost"]
|
|
},
|
|
"intansv": {
|
|
"name": "intansv",
|
|
"version": "1.44.0",
|
|
"sha256": "1njvcyk4gdk2bxvs6zbz7dypcbmfismxpv8afxn02i2lz3ykdyzd",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "ggbio", "plyr"]
|
|
},
|
|
"interacCircos": {
|
|
"name": "interacCircos",
|
|
"version": "1.14.0",
|
|
"sha256": "084136v9ghzgqgqv3k523416q2wl4qb6ix862fagjgwmkzdmr5s8",
|
|
"depends": ["RColorBrewer", "htmlwidgets", "plyr"]
|
|
},
|
|
"interactiveDisplay": {
|
|
"name": "interactiveDisplay",
|
|
"version": "1.42.0",
|
|
"sha256": "14k1j8bmpbrldx61fbvn20f7l2lc50bj9iy01a5jf0ddcbi27x5g",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Category", "RColorBrewer", "XML", "ggplot2", "gridSVG", "interactiveDisplayBase", "plyr", "reshape2", "shiny"]
|
|
},
|
|
"interactiveDisplayBase": {
|
|
"name": "interactiveDisplayBase",
|
|
"version": "1.42.0",
|
|
"sha256": "0ih9b6n81gr84vhmwcq49knrbmkwbh50gy5hrap654nicb3j3jzb",
|
|
"depends": ["BiocGenerics", "DT", "shiny"]
|
|
},
|
|
"ipdDb": {
|
|
"name": "ipdDb",
|
|
"version": "1.22.0",
|
|
"sha256": "10pk87w4yd6kgsbg79ci6csmk3izpxc8kwhn5f0jywmjdci7k3nq",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "Biostrings", "DBI", "GenomicRanges", "IRanges", "RSQLite", "assertthat"]
|
|
},
|
|
"isobar": {
|
|
"name": "isobar",
|
|
"version": "1.50.0",
|
|
"sha256": "0vqiw5bwk4mivj8b1a96qglqsmsfi4p6vd40x0rxafifb46i83h3",
|
|
"depends": ["Biobase", "biomaRt", "distr", "ggplot2", "plyr"]
|
|
},
|
|
"isomiRs": {
|
|
"name": "isomiRs",
|
|
"version": "1.32.1",
|
|
"sha256": "020ij0byr9pnzxp083yyjscn3iwv7yq7v2zsdalqs4bzn6z7mzq8",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DEGreport", "DESeq2", "GGally", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "broom", "cluster", "cowplot", "dplyr", "ggplot2", "gplots", "gridExtra", "gtools", "limma", "readr", "reshape", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"iterativeBMA": {
|
|
"name": "iterativeBMA",
|
|
"version": "1.62.0",
|
|
"sha256": "1h2nz7pfagd4ncm64b7zfqawp3gd88kvz8920wmk5s732490x522",
|
|
"depends": ["BMA", "Biobase", "leaps"]
|
|
},
|
|
"iterativeBMAsurv": {
|
|
"name": "iterativeBMAsurv",
|
|
"version": "1.62.0",
|
|
"sha256": "1g0bg1cbk95pg1zf1xqk5dxii3cwfkwzx5ys1mzzab6b9i740las",
|
|
"depends": ["BMA", "leaps", "survival"]
|
|
},
|
|
"ivygapSE": {
|
|
"name": "ivygapSE",
|
|
"version": "1.26.0",
|
|
"sha256": "00i91a1r3xk7czcv5f7kxppgzjsvalxmzwyqj6mg5m3z4l77m17n",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "UpSetR", "ggplot2", "hwriter", "plotly", "shiny", "survival", "survminer"]
|
|
},
|
|
"karyoploteR": {
|
|
"name": "karyoploteR",
|
|
"version": "1.30.0",
|
|
"sha256": "1g4pms5dcr4cdb47gr9kw3mc06v890b38zrsapd4x1cqhgfbgjyg",
|
|
"depends": ["AnnotationDbi", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "VariantAnnotation", "bamsignals", "bezier", "biovizBase", "digest", "memoise", "regioneR", "rtracklayer"]
|
|
},
|
|
"katdetectr": {
|
|
"name": "katdetectr",
|
|
"version": "1.6.0",
|
|
"sha256": "1hc3795f26cz1xml01zac83gmam15pvxd0pl2i9q4mardnkj9w7s",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Hsapiens_UCSC_hg38", "Biobase", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rdpack", "S4Vectors", "VariantAnnotation", "changepoint", "changepoint_np", "checkmate", "dplyr", "ggplot2", "ggtext", "maftools", "plyranges", "rlang", "scales", "tibble", "tidyr"]
|
|
},
|
|
"kebabs": {
|
|
"name": "kebabs",
|
|
"version": "1.38.0",
|
|
"sha256": "0v4sgxvyhi3lzr3jw82w00ffdg0w55vi78ia9i805kqy77sq0677",
|
|
"depends": ["Biostrings", "IRanges", "LiblineaR", "Matrix", "Rcpp", "S4Vectors", "XVector", "apcluster", "e1071", "kernlab"]
|
|
},
|
|
"keggorthology": {
|
|
"name": "keggorthology",
|
|
"version": "2.56.0",
|
|
"sha256": "14sywfqfwbi3xanc202d07hb9yzahd94xqg9mx9djgin5b4islz3",
|
|
"depends": ["AnnotationDbi", "DBI", "graph", "hgu95av2_db"]
|
|
},
|
|
"kissDE": {
|
|
"name": "kissDE",
|
|
"version": "1.24.0",
|
|
"sha256": "1700shil37hsij9h4q3zr2cq3wav9bpbm74d7spbyv0l1fnl8fx9",
|
|
"depends": ["Biobase", "DESeq2", "DSS", "DT", "ade4", "aods3", "doParallel", "factoextra", "foreach", "ggplot2", "gplots", "matrixStats", "shiny", "shinycssloaders"]
|
|
},
|
|
"knowYourCG": {
|
|
"name": "knowYourCG",
|
|
"version": "1.0.0",
|
|
"sha256": "1nxg81p67d66bzy2fw6dsj02zh33pas02rai1prpsyjs7699bcqf",
|
|
"depends": ["GenomicRanges", "IRanges", "S4Vectors", "dplyr", "reshape2", "rlang", "sesameData", "stringr"]
|
|
},
|
|
"lapmix": {
|
|
"name": "lapmix",
|
|
"version": "1.70.0",
|
|
"sha256": "1s2f28v21yjxi8rx08cdhd8g76wxm9wq48lq0c6kd7w4iklwwxd1",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"ldblock": {
|
|
"name": "ldblock",
|
|
"version": "1.34.0",
|
|
"sha256": "1l4l35bpz4j1iliy9dj09qq8r4nimd9pcm0gm4g3sb4325z6cd5h",
|
|
"depends": ["BiocGenerics", "Matrix", "httr", "rlang"]
|
|
},
|
|
"lefser": {
|
|
"name": "lefser",
|
|
"version": "1.14.0",
|
|
"sha256": "1qi4q3vijys4q1gfnflvvz8ws3j6f65rpprpgmrkqgiwfn7dvi6g",
|
|
"depends": ["MASS", "S4Vectors", "SummarizedExperiment", "coin", "dplyr", "ggplot2"]
|
|
},
|
|
"lemur": {
|
|
"name": "lemur",
|
|
"version": "1.2.0",
|
|
"sha256": "1hwnf8x9prqv96j66i5756510jviibbrchyizalhrlg8f427i5my",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "DelayedMatrixStats", "HDF5Array", "Matrix", "MatrixGenerics", "Rcpp", "RcppArmadillo", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "glmGamPoi", "harmony", "irlba", "limma", "matrixStats", "rlang", "vctrs"]
|
|
},
|
|
"les": {
|
|
"name": "les",
|
|
"version": "1.54.0",
|
|
"sha256": "1dsdrdv06ab7rxpvmbgq1b6dhajjaw7zgvi9nshadm5gg28i60x3",
|
|
"depends": ["RColorBrewer", "boot", "fdrtool", "gplots"]
|
|
},
|
|
"levi": {
|
|
"name": "levi",
|
|
"version": "1.22.0",
|
|
"sha256": "0rknsfa5fbr4smxzj4p589sxxbypb2s1wvn33p9qj69mfcx7rmi3",
|
|
"depends": ["DT", "RColorBrewer", "Rcpp", "colorspace", "dplyr", "ggplot2", "httr", "igraph", "knitr", "reshape2", "rmarkdown", "shiny", "shinydashboard", "shinyjs", "testthat", "xml2"]
|
|
},
|
|
"lfa": {
|
|
"name": "lfa",
|
|
"version": "2.4.0",
|
|
"sha256": "1sbgr6h2kpfpzw3fkqd1075wrmbblb97pdywmvl8xv52vg0wqxz3",
|
|
"depends": ["RSpectra", "corpcor"]
|
|
},
|
|
"limma": {
|
|
"name": "limma",
|
|
"version": "3.60.4",
|
|
"sha256": "123z062fc0qf43zplmw5svzpdmpgxagyl1gi1bxa34426s1hfv6m",
|
|
"depends": ["statmod"]
|
|
},
|
|
"limmaGUI": {
|
|
"name": "limmaGUI",
|
|
"version": "1.80.0",
|
|
"sha256": "12ryq8l3jkxi5znzhb9bqp53sba7rk2fszsxp1dkwmyrdl12l4ns",
|
|
"depends": ["R2HTML", "limma", "tkrplot", "xtable"]
|
|
},
|
|
"limpca": {
|
|
"name": "limpca",
|
|
"version": "1.0.0",
|
|
"sha256": "1id38g2s7g0shcqz37i03zhhypilny8z2dwf74anj8yj4d1isdfr",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "doParallel", "dplyr", "ggplot2", "ggrepel", "ggsci", "plyr", "reshape2", "stringr", "tibble", "tidyr", "tidyverse"]
|
|
},
|
|
"lineagespot": {
|
|
"name": "lineagespot",
|
|
"version": "1.8.0",
|
|
"sha256": "0rjf4liq6lr6i3b2a0cn22qc1xisscsvn7zi11vq8wq0ym15pj6c",
|
|
"depends": ["MatrixGenerics", "SummarizedExperiment", "VariantAnnotation", "data_table", "httr", "stringr"]
|
|
},
|
|
"lionessR": {
|
|
"name": "lionessR",
|
|
"version": "1.18.0",
|
|
"sha256": "1rv9daa45if6nm3yh1sbpnywmdpdi0kmga25pwzfjwv26f9kyd6q",
|
|
"depends": ["S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"lipidr": {
|
|
"name": "lipidr",
|
|
"version": "2.18.0",
|
|
"sha256": "037xy9ci3h0913df5iy5xnciz26zr9frqfpk8krbx7qfzk4d0rk2",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "data_table", "dplyr", "fgsea", "forcats", "ggplot2", "imputeLCMD", "limma", "magrittr", "rlang", "ropls", "tidyr"]
|
|
},
|
|
"lisaClust": {
|
|
"name": "lisaClust",
|
|
"version": "1.12.3",
|
|
"sha256": "19zb7h7k6yn2hjq204w49kz97r2fhflnw87b6qsmavhrpva6g9a1",
|
|
"depends": ["BiocGenerics", "BiocParallel", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "class", "concaveman", "data_table", "dplyr", "ggplot2", "pheatmap", "purrr", "spatstat_explore", "spatstat_geom", "spatstat_random", "spicyR", "tidyr"]
|
|
},
|
|
"lmdme": {
|
|
"name": "lmdme",
|
|
"version": "1.46.0",
|
|
"sha256": "19rplb4ik9jpxqghmglqhv42plbgz01i4pdw7pr063cdc2n3n18g",
|
|
"depends": ["limma", "pls", "stemHypoxia"]
|
|
},
|
|
"loci2path": {
|
|
"name": "loci2path",
|
|
"version": "1.24.0",
|
|
"sha256": "0igamscdyblh7ymj62qimwr48qfvpqld4ami0m3bnlzkkds6xm2n",
|
|
"depends": ["BiocParallel", "GenomicRanges", "RColorBrewer", "S4Vectors", "data_table", "pheatmap", "wordcloud"]
|
|
},
|
|
"logicFS": {
|
|
"name": "logicFS",
|
|
"version": "2.24.0",
|
|
"sha256": "1dbc8zwgixjjcdhy3fgln08c0kycrzbcd46vqjb4l479pdrj2r0l",
|
|
"depends": ["LogicReg", "mcbiopi", "survival"]
|
|
},
|
|
"lpNet": {
|
|
"name": "lpNet",
|
|
"version": "2.36.0",
|
|
"sha256": "14b7d942k15bjadakfvac8s9zhdhqw59pvpmal527rwm5z6avfvl",
|
|
"depends": ["KEGGgraph", "lpSolve"]
|
|
},
|
|
"lpsymphony": {
|
|
"name": "lpsymphony",
|
|
"version": "1.32.0",
|
|
"sha256": "1wcjmw655k389ph61v3gxjv7gk2q70h25zmdzvd4ggbxg8vh2mp1",
|
|
"depends": []
|
|
},
|
|
"lumi": {
|
|
"name": "lumi",
|
|
"version": "2.56.0",
|
|
"sha256": "04r7dw00yvjrxs0h6mwh79lwp55f5v8s4pgmzcy2fnpb2cdslpzy",
|
|
"depends": ["AnnotationDbi", "Biobase", "DBI", "GenomicFeatures", "GenomicRanges", "KernSmooth", "MASS", "RSQLite", "affy", "annotate", "lattice", "methylumi", "mgcv", "nleqslv", "preprocessCore"]
|
|
},
|
|
"lute": {
|
|
"name": "lute",
|
|
"version": "1.0.0",
|
|
"sha256": "02hqwxmqld3fkvs7c7l8hz39wksxgbcnckgvkzgpaknsb2fdmml0",
|
|
"depends": ["Biobase", "BiocGenerics", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "scran"]
|
|
},
|
|
"m6Aboost": {
|
|
"name": "m6Aboost",
|
|
"version": "1.10.0",
|
|
"sha256": "141jrx1ngwb70pl769ablzvxcd4f4dfgzi0jdsmqgmhb3kb3qvg2",
|
|
"depends": ["BSgenome", "Biostrings", "ExperimentHub", "GenomicRanges", "IRanges", "S4Vectors", "adabag", "dplyr", "rtracklayer"]
|
|
},
|
|
"mBPCR": {
|
|
"name": "mBPCR",
|
|
"version": "1.58.0",
|
|
"sha256": "182qbhzpj5h0qcyiph0k38bvlspc8i7g3bg27vkak5p8685hwrk8",
|
|
"depends": ["Biobase", "GWASTools", "oligoClasses"]
|
|
},
|
|
"mCSEA": {
|
|
"name": "mCSEA",
|
|
"version": "1.24.0",
|
|
"sha256": "11mx1250kvdmkriznzp0a05jvf9paizj7qsgq7wzlvgz9f6nfwyw",
|
|
"depends": ["GenomicFeatures", "GenomicRanges", "Gviz", "Homo_sapiens", "IRanges", "S4Vectors", "SummarizedExperiment", "biomaRt", "fgsea", "ggplot2", "limma", "mCSEAdata"]
|
|
},
|
|
"maCorrPlot": {
|
|
"name": "maCorrPlot",
|
|
"version": "1.74.0",
|
|
"sha256": "0z4ilr1r9231f3h2zq6ac2spd3dcaa4j48hkih7nrqrgr9x1127d",
|
|
"depends": ["lattice"]
|
|
},
|
|
"maPredictDSC": {
|
|
"name": "maPredictDSC",
|
|
"version": "1.42.0",
|
|
"sha256": "015zp1ijl4sjqvrnaf0fzwzynvwjgphxba4q29m821hyvq1rjmx4",
|
|
"depends": ["AnnotationDbi", "LungCancerACvsSCCGEO", "MASS", "ROC", "ROCR", "affy", "caret", "class", "e1071", "gcrma", "hgu133plus2_db", "limma"]
|
|
},
|
|
"maSigPro": {
|
|
"name": "maSigPro",
|
|
"version": "1.76.0",
|
|
"sha256": "1kb5xjg84jbri3ds5kvr30nypg2picz483nwwjamk8px6d3anmry",
|
|
"depends": ["Biobase", "MASS", "mclust", "venn"]
|
|
},
|
|
"made4": {
|
|
"name": "made4",
|
|
"version": "1.78.0",
|
|
"sha256": "0x96lhkz0fwp3qis8k2lllmi520b887bz26jcq3zlk1kjhbg91a8",
|
|
"depends": ["Biobase", "RColorBrewer", "SummarizedExperiment", "ade4", "gplots", "scatterplot3d"]
|
|
},
|
|
"maftools": {
|
|
"name": "maftools",
|
|
"version": "2.20.0",
|
|
"sha256": "0c2sf8l1wfgz3nh9ccm10y9wwh7rv55r09awavqlrr9glcbblp32",
|
|
"depends": ["DNAcopy", "RColorBrewer", "Rhtslib", "data_table", "survival", "zlibbioc"]
|
|
},
|
|
"magpie": {
|
|
"name": "magpie",
|
|
"version": "1.4.0",
|
|
"sha256": "1m5xnbcyhglkg843fhfvynlinag8vv8sxg1ghzpwi0q9ki65kq9d",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "DESeq2", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "RColorBrewer", "Rsamtools", "S4Vectors", "TRESS", "aod", "matrixStats", "openxlsx", "reshape2", "rtracklayer"]
|
|
},
|
|
"magrene": {
|
|
"name": "magrene",
|
|
"version": "1.6.0",
|
|
"sha256": "1nqklrz4l2g062ipff6znzl9lm4ws69qplrdb0r5fsfahpb8s25z",
|
|
"depends": ["BiocParallel"]
|
|
},
|
|
"makecdfenv": {
|
|
"name": "makecdfenv",
|
|
"version": "1.80.0",
|
|
"sha256": "0c1ks5f2rc0mwbfji6iicvypbmm46mq8yckmdpwiyp22l7l05aqz",
|
|
"depends": ["Biobase", "affy", "affyio", "zlibbioc"]
|
|
},
|
|
"mapscape": {
|
|
"name": "mapscape",
|
|
"version": "1.28.0",
|
|
"sha256": "1xg3nm9r115fzykq8m31xcr7anaqyqm91qnsmib89zvf0hfgrlac",
|
|
"depends": ["base64enc", "htmlwidgets", "jsonlite", "stringr"]
|
|
},
|
|
"mariner": {
|
|
"name": "mariner",
|
|
"version": "1.4.0",
|
|
"sha256": "1ndinmzzzpy154jmndnqf5xj3wz35jjijszg88ga4j19w2cxmnfp",
|
|
"depends": ["BiocGenerics", "BiocManager", "BiocParallel", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "InteractionSet", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "abind", "assertthat", "colourvalues", "data_table", "dbscan", "glue", "magrittr", "plotgardener", "plyranges", "progress", "purrr", "rhdf5", "rlang", "strawr"]
|
|
},
|
|
"marr": {
|
|
"name": "marr",
|
|
"version": "1.14.0",
|
|
"sha256": "1670fr6fcclrhgz6aqg0ph9iln0vjq3zgyp215na07ngwrzjw5nb",
|
|
"depends": ["Rcpp", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "magrittr", "rlang"]
|
|
},
|
|
"marray": {
|
|
"name": "marray",
|
|
"version": "1.82.0",
|
|
"sha256": "1h96aq92bad69ycrmrvxwdz8dg9rk44925gj83gxzqypw88j2x0y",
|
|
"depends": ["limma"]
|
|
},
|
|
"martini": {
|
|
"name": "martini",
|
|
"version": "1.24.0",
|
|
"sha256": "07d1cyj2ms8mnglqzqs45gz32pdsqkfac00a118fahs1rw8j408f",
|
|
"depends": ["Matrix", "Rcpp", "RcppEigen", "igraph", "memoise", "snpStats"]
|
|
},
|
|
"maser": {
|
|
"name": "maser",
|
|
"version": "1.22.0",
|
|
"sha256": "0w62dl65ysgcwixgmmb70qp6f85vhfnqjsww5snkjd48ypwx65ca",
|
|
"depends": ["BiocGenerics", "DT", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "data_table", "dplyr", "ggplot2", "reshape2", "rtracklayer"]
|
|
},
|
|
"maskBAD": {
|
|
"name": "maskBAD",
|
|
"version": "1.48.0",
|
|
"sha256": "198637aq9pjwx2p22iyy1nzy76pys2cmvfpdrghslh10l1b5pdjl",
|
|
"depends": ["affy", "gcrma"]
|
|
},
|
|
"massiR": {
|
|
"name": "massiR",
|
|
"version": "1.40.0",
|
|
"sha256": "169gpddm1q3brj49sm3sp4ifyby37i41ydxjizwpa9aml90zc0y8",
|
|
"depends": ["Biobase", "cluster", "diptest", "gplots"]
|
|
},
|
|
"mastR": {
|
|
"name": "mastR",
|
|
"version": "1.4.0",
|
|
"sha256": "1717hyil3x4c6jqv4zv6fwppwq1lc74kd8hg8z8yj8qqp92093f8",
|
|
"depends": ["AnnotationDbi", "Biobase", "GSEABase", "Matrix", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "edgeR", "ggplot2", "ggpubr", "limma", "msigdb", "org_Hs_eg_db", "patchwork", "tidyr"]
|
|
},
|
|
"matchBox": {
|
|
"name": "matchBox",
|
|
"version": "1.46.0",
|
|
"sha256": "015gdqbwdl02mwr7hcymdkz8pvbxjh4qv4agswh3d8qd3mmj04y6",
|
|
"depends": []
|
|
},
|
|
"matter": {
|
|
"name": "matter",
|
|
"version": "2.6.3",
|
|
"sha256": "17903fjwxa77llwcf1r783ca3nh10l4lpxd2q65s1jnvk9sjcn65",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Matrix", "ProtGenerics", "biglm", "digest", "irlba"]
|
|
},
|
|
"mbQTL": {
|
|
"name": "mbQTL",
|
|
"version": "1.4.0",
|
|
"sha256": "04ml4rv1hngr8lm9z9pcg7szb1cmla1m1vypwjk9bkkfy879ribf",
|
|
"depends": ["MatrixEQTL", "broom", "dplyr", "ggplot2", "metagenomeSeq", "pheatmap", "readxl", "stringr", "tidyr"]
|
|
},
|
|
"mbkmeans": {
|
|
"name": "mbkmeans",
|
|
"version": "1.20.0",
|
|
"sha256": "0fnf6ymbcfchhlcbwpwlcq1jc3lfzh9f8mf76xfy7vrpwngds1fs",
|
|
"depends": ["BiocParallel", "ClusterR", "DelayedArray", "Matrix", "Rcpp", "RcppArmadillo", "Rhdf5lib", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "benchmarkme"]
|
|
},
|
|
"mdp": {
|
|
"name": "mdp",
|
|
"version": "1.24.0",
|
|
"sha256": "08x2ghj5a91rdqq48xjsq4m22qk2ys92jhb6flaqzqgm1s6806lw",
|
|
"depends": ["ggplot2", "gridExtra"]
|
|
},
|
|
"mdqc": {
|
|
"name": "mdqc",
|
|
"version": "1.66.0",
|
|
"sha256": "1frn6s43j6sbwnb5h2hykccvi7cwbasp8l37rc3nkxpc6szvsby6",
|
|
"depends": ["MASS", "cluster"]
|
|
},
|
|
"megadepth": {
|
|
"name": "megadepth",
|
|
"version": "1.14.0",
|
|
"sha256": "0394x1x81hgibvqb1dbrm8h3y72xfv9xi9fgqghjgnrw6farrkdk",
|
|
"depends": ["GenomicRanges", "cmdfun", "dplyr", "fs", "magrittr", "readr", "xfun"]
|
|
},
|
|
"memes": {
|
|
"name": "memes",
|
|
"version": "1.12.0",
|
|
"sha256": "03hrhydlgk57z9hzmwdgihlhsjyhhzw5vb5ql07ks169z15nix4h",
|
|
"depends": ["Biostrings", "GenomicRanges", "cmdfun", "dplyr", "ggplot2", "ggseqlogo", "magrittr", "matrixStats", "patchwork", "processx", "purrr", "readr", "rlang", "tibble", "tidyr", "universalmotif", "usethis", "xml2"]
|
|
},
|
|
"meshes": {
|
|
"name": "meshes",
|
|
"version": "1.30.0",
|
|
"sha256": "0yc1drx7rbaxasj9p05hn4wa1nz0frymv7i9aw55ma59jjik8gi6",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "DOSE", "GOSemSim", "MeSHDbi", "enrichplot", "yulab_utils"]
|
|
},
|
|
"meshr": {
|
|
"name": "meshr",
|
|
"version": "2.10.0",
|
|
"sha256": "1cbxlypw937bafmzlz8v0g1bf16pmlqdc1jkisj8zmaj9xabbik9",
|
|
"depends": ["BiocGenerics", "BiocStyle", "Category", "MeSHDbi", "RSQLite", "S4Vectors", "fdrtool", "knitr", "markdown", "rmarkdown"]
|
|
},
|
|
"messina": {
|
|
"name": "messina",
|
|
"version": "1.40.0",
|
|
"sha256": "0xcc5y4zqz0hn7bm0lgyb8dlnhhq5nz1pghq53lvdmgr5zcp8yqz",
|
|
"depends": ["Rcpp", "foreach", "ggplot2", "plyr", "survival"]
|
|
},
|
|
"metaCCA": {
|
|
"name": "metaCCA",
|
|
"version": "1.32.0",
|
|
"sha256": "1m35p9r3v2qzk3y1046p1n1j84rw6a1hsfsij58p4byi34hrfc1a",
|
|
"depends": []
|
|
},
|
|
"metaMS": {
|
|
"name": "metaMS",
|
|
"version": "1.40.0",
|
|
"sha256": "0fj111vs9s1j754jhqzna89jnibiff6pahbn1vibh7gsx310ri0s",
|
|
"depends": ["BiocGenerics", "CAMERA", "Matrix", "robustbase", "xcms"]
|
|
},
|
|
"metaSeq": {
|
|
"name": "metaSeq",
|
|
"version": "1.44.0",
|
|
"sha256": "0n5s8kssvawcdi7sqhgpbrdwi39j22clgprcj9psd8i6g2n7iwc8",
|
|
"depends": ["NOISeq", "Rcpp", "snow"]
|
|
},
|
|
"metabCombiner": {
|
|
"name": "metabCombiner",
|
|
"version": "1.14.0",
|
|
"sha256": "0jp39qz7z3v7ndnxhc4lsjwf1mfhjq5nsg926s1x1i7w5x203fzd",
|
|
"depends": ["S4Vectors", "caret", "dplyr", "matrixStats", "mgcv", "rlang", "tidyr"]
|
|
},
|
|
"metabinR": {
|
|
"name": "metabinR",
|
|
"version": "1.6.0",
|
|
"sha256": "158lwd9l5yszlh28zsfn2ddmq6p8hlknvzy8k1spxmqdddqhp9zy",
|
|
"depends": ["rJava"]
|
|
},
|
|
"metabolomicsWorkbenchR": {
|
|
"name": "metabolomicsWorkbenchR",
|
|
"version": "1.14.2",
|
|
"sha256": "1aj3b9zpnvmb0h5bbmd7nsvfg50a834nwrgvqw6707ncyw1p7vgi",
|
|
"depends": ["MultiAssayExperiment", "SummarizedExperiment", "data_table", "httr", "jsonlite", "struct"]
|
|
},
|
|
"metabomxtr": {
|
|
"name": "metabomxtr",
|
|
"version": "1.38.0",
|
|
"sha256": "1jfhz28q4bxib3k2wvdcqsrqj699bxy0lzqqi7m0xivrjp27jw9h",
|
|
"depends": ["Biobase", "BiocParallel", "Formula", "ggplot2", "multtest", "optimx", "plyr"]
|
|
},
|
|
"metagene2": {
|
|
"name": "metagene2",
|
|
"version": "1.20.0",
|
|
"sha256": "1j5jl0xczj2g03k0lwq9h5snv4kpwqga836dkshnmf789gn2pzy3",
|
|
"depends": ["BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "R6", "Rsamtools", "data_table", "dplyr", "ggplot2", "magrittr", "purrr", "reshape2", "rtracklayer"]
|
|
},
|
|
"metagenomeSeq": {
|
|
"name": "metagenomeSeq",
|
|
"version": "1.46.0",
|
|
"sha256": "0bjbiwbgs0lv0j6gjv5rhqhmqk0p7f80lfig4n24i4bqwkd2j26k",
|
|
"depends": ["Biobase", "Matrix", "RColorBrewer", "Wrench", "foreach", "glmnet", "gplots", "limma", "matrixStats"]
|
|
},
|
|
"metahdep": {
|
|
"name": "metahdep",
|
|
"version": "1.62.0",
|
|
"sha256": "1h888yl95xnr07ybz5hrfpslcc7xh0nggnl57lcw8ikqj8wgcnc2",
|
|
"depends": []
|
|
},
|
|
"metapod": {
|
|
"name": "metapod",
|
|
"version": "1.12.0",
|
|
"sha256": "100wsg2y7069r7xk5bsk5n4n8dqvpbk297w5ishnijrvxhbs9f8n",
|
|
"depends": ["Rcpp"]
|
|
},
|
|
"metapone": {
|
|
"name": "metapone",
|
|
"version": "1.10.0",
|
|
"sha256": "0x5lrpf5554h2i521ikxgadpwj4233ib4n5p9qpass7y3z0kpxh7",
|
|
"depends": ["BiocParallel", "fdrtool", "fgsea", "fields", "ggplot2", "ggrepel", "markdown"]
|
|
},
|
|
"metaseqR2": {
|
|
"name": "metaseqR2",
|
|
"version": "1.16.0",
|
|
"sha256": "1rkaacb0jkfzhdd7q7v38by7wwmk4m4kfa01ky8yn2fady0sx3hm",
|
|
"depends": ["ABSSeq", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DESeq2", "DSS", "DT", "EDASeq", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "MASS", "Matrix", "NBPSeq", "RSQLite", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VennDiagram", "biomaRt", "corrplot", "edgeR", "genefilter", "gplots", "harmonicmeanp", "heatmaply", "htmltools", "httr", "jsonlite", "lattice", "limma", "locfit", "log4r", "magrittr", "pander", "qvalue", "rmarkdown", "rmdformats", "rtracklayer", "stringr", "survcomp", "txdbmaker", "vsn", "yaml", "zoo"]
|
|
},
|
|
"methInheritSim": {
|
|
"name": "methInheritSim",
|
|
"version": "1.26.0",
|
|
"sha256": "0c94sbqa0aiskrl8rxyiyj38a5n4vw1l2b51c2v0ryvjqk0zg93n",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "methylKit", "msm"]
|
|
},
|
|
"methimpute": {
|
|
"name": "methimpute",
|
|
"version": "1.26.0",
|
|
"sha256": "1k9nasdfvrynvk2jsvxpbbp9zdqh516c41m654yfsdi5cl2y3jyd",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rcpp", "data_table", "ggplot2", "minpack_lm", "reshape2"]
|
|
},
|
|
"methodical": {
|
|
"name": "methodical",
|
|
"version": "1.0.0",
|
|
"sha256": "13m75hf5dq36l20idp9alcikhhqa2qy5jwfnpkv2yp1ra6c9pq7j",
|
|
"depends": ["BSgenome", "BiocParallel", "Biostrings", "DelayedArray", "ExperimentHub", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "R_utils", "RcppRoll", "S4Vectors", "SummarizedExperiment", "cowplot", "data_table", "dplyr", "foreach", "ggplot2", "rhdf5", "rtracklayer", "scales", "tibble", "tidyr"]
|
|
},
|
|
"methrix": {
|
|
"name": "methrix",
|
|
"version": "1.18.0",
|
|
"sha256": "0976y3aswyv7dk60ix9vvcvd6dgc0sy8qnakq3pdrl505znxsshi",
|
|
"depends": ["BSgenome", "DelayedArray", "DelayedMatrixStats", "GenomicRanges", "HDF5Array", "IRanges", "S4Vectors", "SummarizedExperiment", "data_table", "ggplot2", "matrixStats", "rtracklayer"]
|
|
},
|
|
"methyLImp2": {
|
|
"name": "methyLImp2",
|
|
"version": "1.0.0",
|
|
"sha256": "1f86951l7gjqj48hxdm6ppc7bp84dm9fnlh0xhhl12fbdp2id94m",
|
|
"depends": ["BiocParallel", "ChAMPdata", "SummarizedExperiment", "corpcor"]
|
|
},
|
|
"methylCC": {
|
|
"name": "methylCC",
|
|
"version": "1.18.0",
|
|
"sha256": "16i4yjx36pdbxf9vqnnr568lqcnql1pw3f5f1hlnq66kaai9hx34",
|
|
"depends": ["Biobase", "FlowSorted_Blood_450k", "GenomicRanges", "IRanges", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylation450kmanifest", "S4Vectors", "bsseq", "bumphunter", "dplyr", "genefilter", "magrittr", "minfi", "plyranges", "quadprog"]
|
|
},
|
|
"methylGSA": {
|
|
"name": "methylGSA",
|
|
"version": "1.22.0",
|
|
"sha256": "0myii2c782my1lmqziaxdlrsfxgh194n58m1ydaqbxnhgkwvh10s",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "GO_db", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylationEPICanno_ilm10b4_hg19", "RobustRankAggreg", "clusterProfiler", "ggplot2", "missMethyl", "org_Hs_eg_db", "reactome_db", "shiny", "stringr"]
|
|
},
|
|
"methylInheritance": {
|
|
"name": "methylInheritance",
|
|
"version": "1.28.0",
|
|
"sha256": "1pqd9ydgm071pa5lld1mn39yymkaghzx931ghlkshhh9dsrjqhg4",
|
|
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "S4Vectors", "ggplot2", "gridExtra", "methylKit", "rebus"]
|
|
},
|
|
"methylKit": {
|
|
"name": "methylKit",
|
|
"version": "1.30.0",
|
|
"sha256": "000dvi63cjikjbq3q83hlspd7y62rpswzg6hs5z1z1pj6a8rifdj",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "KernSmooth", "R_utils", "Rcpp", "Rhtslib", "Rsamtools", "S4Vectors", "data_table", "emdbook", "fastseg", "gtools", "limma", "mclust", "mgcv", "qvalue", "rtracklayer", "zlibbioc"]
|
|
},
|
|
"methylMnM": {
|
|
"name": "methylMnM",
|
|
"version": "1.42.0",
|
|
"sha256": "0f1mc3v1zr55irlqfxkp7s7cv2c1crwr60hj4ff1ld14ds91q9pr",
|
|
"depends": ["edgeR", "statmod"]
|
|
},
|
|
"methylPipe": {
|
|
"name": "methylPipe",
|
|
"version": "1.38.0",
|
|
"sha256": "1v2qp5rp19d80aai8i5y32b62kynkkdkp3hqfvsk82ckwxvk2k60",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "Gviz", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "data_table", "gplots", "marray"]
|
|
},
|
|
"methylSig": {
|
|
"name": "methylSig",
|
|
"version": "1.16.0",
|
|
"sha256": "03ghyx1xj2d06fj5kckrw810x92s8ndsq3wpj1kcjkf1v22vr0ln",
|
|
"depends": ["DSS", "DelayedArray", "DelayedMatrixStats", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "bsseq"]
|
|
},
|
|
"methylclock": {
|
|
"name": "methylclock",
|
|
"version": "1.10.0",
|
|
"sha256": "193ck7a501804424yqvg2c8zixzj56p3d8468sdisx577hhshhhm",
|
|
"depends": ["Biobase", "ExperimentHub", "PerformanceAnalytics", "RPMM", "Rcpp", "devtools", "dplyr", "dynamicTreeCut", "ggplot2", "ggpmisc", "ggpubr", "gridExtra", "impute", "methylclockData", "minfi", "planet", "preprocessCore", "quadprog", "tibble", "tidyr", "tidyverse"]
|
|
},
|
|
"methylscaper": {
|
|
"name": "methylscaper",
|
|
"version": "1.12.0",
|
|
"sha256": "19xpagmx9rn840acbm2cj3vkvhjzr1rslsjmjgvgcm4fip1yrskp",
|
|
"depends": ["BiocParallel", "Biostrings", "Rfast", "SummarizedExperiment", "data_table", "pwalign", "seqinr", "seriation", "shiny", "shinyFiles", "shinyjs"]
|
|
},
|
|
"methylumi": {
|
|
"name": "methylumi",
|
|
"version": "2.50.0",
|
|
"sha256": "1ms3w43yvy810mr6dml9hqp3kw5jlpr9153kd62gvhjsgikaj3ja",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "FDb_InfiniumMethylation_hg19", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "annotate", "genefilter", "ggplot2", "illuminaio", "lattice", "matrixStats", "minfi", "reshape2", "scales"]
|
|
},
|
|
"mfa": {
|
|
"name": "mfa",
|
|
"version": "1.26.0",
|
|
"sha256": "1vqmpxsl9dfq0h9cirip578crfnqxpabbwpzlglcm0qqwymh6ilr",
|
|
"depends": ["Biobase", "MCMCglmm", "MCMCpack", "Rcpp", "coda", "dplyr", "ggmcmc", "ggplot2", "magrittr", "tibble"]
|
|
},
|
|
"mgsa": {
|
|
"name": "mgsa",
|
|
"version": "1.52.0",
|
|
"sha256": "00404pglk2f7hq8pfb3i8zigwzal74m0kk39by2rigyigdcq4sq9",
|
|
"depends": ["gplots"]
|
|
},
|
|
"miQC": {
|
|
"name": "miQC",
|
|
"version": "1.12.0",
|
|
"sha256": "04f7jza631y04mhy23yvipd88rywgpqw5jm9ff54hhfhmscdaczn",
|
|
"depends": ["SingleCellExperiment", "flexmix", "ggplot2"]
|
|
},
|
|
"miRLAB": {
|
|
"name": "miRLAB",
|
|
"version": "1.34.0",
|
|
"sha256": "1r18s6d94csqqbkjis5dh5q4rbw1qvj61x8wmzw7jgyvrsyd5jqc",
|
|
"depends": ["Category", "GOstats", "Hmisc", "InvariantCausalPrediction", "RCurl", "SummarizedExperiment", "TCGAbiolinks", "ctc", "dplyr", "energy", "entropy", "glmnet", "gplots", "httr", "impute", "limma", "org_Hs_eg_db", "pcalg", "stringr"]
|
|
},
|
|
"miRNAmeConverter": {
|
|
"name": "miRNAmeConverter",
|
|
"version": "1.32.0",
|
|
"sha256": "0sqar3llyj10kmix9vb870nra5n735m9897qyf0zic9n21gmmbsp",
|
|
"depends": ["AnnotationDbi", "DBI", "miRBaseVersions_db", "reshape2"]
|
|
},
|
|
"miRNApath": {
|
|
"name": "miRNApath",
|
|
"version": "1.64.0",
|
|
"sha256": "0zhgh9qls59kn6gd977gawvwh0pqdwwasla1gbvbiakhw3i1jw9r",
|
|
"depends": []
|
|
},
|
|
"miRNAtap": {
|
|
"name": "miRNAtap",
|
|
"version": "1.38.0",
|
|
"sha256": "07sff3h9hidw5xr11fx6n4ngajvsvbz4a1gkavd32wh6j8jccpyx",
|
|
"depends": ["AnnotationDbi", "DBI", "RSQLite", "plyr", "sqldf", "stringr"]
|
|
},
|
|
"miRSM": {
|
|
"name": "miRSM",
|
|
"version": "2.0.0",
|
|
"sha256": "0wxwz00fsv8jf291zlfjim89vhsbqwlc9klq0szzl1p7msrs7vga",
|
|
"depends": ["BiBitR", "BicARE", "Biobase", "DOSE", "GFA", "GSEABase", "MCL", "MatrixCorrelation", "NMF", "PMA", "Rcpp", "ReactomePA", "SOMbrero", "SummarizedExperiment", "WGCNA", "biclust", "clusterProfiler", "dbscan", "dynamicTreeCut", "energy", "fabia", "flashClust", "iBBiG", "igraph", "isa2", "linkcomm", "mclust", "org_Hs_eg_db", "ppclust", "rqubic", "s4vd", "subspace"]
|
|
},
|
|
"miRcomp": {
|
|
"name": "miRcomp",
|
|
"version": "1.34.0",
|
|
"sha256": "1gm8s0mprb5ybc1hb92w1z84qrj4vzfizd0ws4ppzj9k6fb12nn9",
|
|
"depends": ["Biobase", "KernSmooth", "miRcompData"]
|
|
},
|
|
"miRspongeR": {
|
|
"name": "miRspongeR",
|
|
"version": "2.8.0",
|
|
"sha256": "0i7j33lwj5kw09dla7967f5z8zp8ls25db432m0ch2n8ialz0anc",
|
|
"depends": ["DOSE", "MCL", "Rcpp", "ReactomePA", "SPONGE", "clusterProfiler", "corpcor", "doParallel", "foreach", "igraph", "linkcomm", "org_Hs_eg_db", "survival"]
|
|
},
|
|
"mia": {
|
|
"name": "mia",
|
|
"version": "1.12.0",
|
|
"sha256": "1wn2lb7hn4zqqcs2jwavpsbk5kw8d78kxg2yv4jjpikpdz7haa2i",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "DECIPHER", "DelayedArray", "DelayedMatrixStats", "DirichletMultinomial", "IRanges", "MASS", "MatrixGenerics", "MultiAssayExperiment", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TreeSummarizedExperiment", "ape", "bluster", "decontam", "dplyr", "rlang", "scater", "scuttle", "tibble", "tidyr", "vegan"]
|
|
},
|
|
"miaSim": {
|
|
"name": "miaSim",
|
|
"version": "1.10.0",
|
|
"sha256": "1grlkynbjkfndx8j44yd6sfr3yzy0fwmakjw4mg8flllqs9yqnmw",
|
|
"depends": ["MatrixGenerics", "S4Vectors", "SummarizedExperiment", "TreeSummarizedExperiment", "deSolve", "poweRlaw"]
|
|
},
|
|
"miaViz": {
|
|
"name": "miaViz",
|
|
"version": "1.12.0",
|
|
"sha256": "1dpvqvh9sg6visf4bbjd9x4wag2dzj2b5mylbxbqwcm8lic7gy03",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DelayedArray", "DirichletMultinomial", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TreeSummarizedExperiment", "ape", "dplyr", "ggnewscale", "ggplot2", "ggraph", "ggrepel", "ggtree", "mia", "purrr", "rlang", "scater", "tibble", "tidygraph", "tidyr", "tidytree", "viridis"]
|
|
},
|
|
"microRNA": {
|
|
"name": "microRNA",
|
|
"version": "1.62.0",
|
|
"sha256": "0jw6g5y9pgvwh10fxpr55nkq8yf6p079kvsx986sgz78y0kkm6zh",
|
|
"depends": ["Biostrings"]
|
|
},
|
|
"microSTASIS": {
|
|
"name": "microSTASIS",
|
|
"version": "1.4.0",
|
|
"sha256": "1gf37nqcif6blpwrlq694gl78l2g1alx13wjdxay6qfg2iaf2dln",
|
|
"depends": ["BiocParallel", "TreeSummarizedExperiment", "ggplot2", "ggside", "rlang", "stringr"]
|
|
},
|
|
"microbiome": {
|
|
"name": "microbiome",
|
|
"version": "1.26.0",
|
|
"sha256": "1azxfydcrxi46j6lykspzchwcj0dpghjia7vfb2bppz9gh8nvk37",
|
|
"depends": ["Biostrings", "Rtsne", "compositions", "dplyr", "ggplot2", "phyloseq", "reshape2", "scales", "tibble", "tidyr", "vegan"]
|
|
},
|
|
"microbiomeDASim": {
|
|
"name": "microbiomeDASim",
|
|
"version": "1.18.0",
|
|
"sha256": "123viwwyc4yjwkc1l7r9als4bvi2sb7yxmyfidqwamw8f2vwsfcz",
|
|
"depends": ["Biobase", "MASS", "Matrix", "ggplot2", "metagenomeSeq", "mvtnorm", "pbapply", "phyloseq", "tmvtnorm"]
|
|
},
|
|
"microbiomeExplorer": {
|
|
"name": "microbiomeExplorer",
|
|
"version": "1.14.0",
|
|
"sha256": "0p15wp3n2v74rfsmap0331b3xkswfyaq8a4h2xrcn3v60m5qfmzq",
|
|
"depends": ["Biobase", "DESeq2", "DT", "RColorBrewer", "biomformat", "broom", "car", "dplyr", "forcats", "heatmaply", "knitr", "limma", "lubridate", "magrittr", "matrixStats", "metagenomeSeq", "plotly", "purrr", "readr", "reshape2", "rlang", "rmarkdown", "shiny", "shinyWidgets", "shinycssloaders", "shinydashboard", "shinyjs", "stringr", "tibble", "tidyr", "vegan"]
|
|
},
|
|
"microbiomeMarker": {
|
|
"name": "microbiomeMarker",
|
|
"version": "1.10.0",
|
|
"sha256": "07w77cm7fjkqnc1rkj9dj6nashpkwbq43nwp6bsq5wp8k4y26gjn",
|
|
"depends": ["ALDEx2", "ANCOMBC", "Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "ComplexHeatmap", "DESeq2", "IRanges", "MASS", "S4Vectors", "biomformat", "caret", "coin", "dplyr", "edgeR", "ggplot2", "ggsignif", "ggtree", "limma", "magrittr", "metagenomeSeq", "multtest", "pROC", "patchwork", "phyloseq", "plotROC", "purrr", "rlang", "tibble", "tidyr", "tidytree", "vegan", "yaml"]
|
|
},
|
|
"midasHLA": {
|
|
"name": "midasHLA",
|
|
"version": "1.12.0",
|
|
"sha256": "0d7zpv88mfs8bgym72ljbr0wammnppc5q0pcf5970z2zapxqmczy",
|
|
"depends": ["HardyWeinberg", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment", "assertthat", "broom", "dplyr", "formattable", "kableExtra", "knitr", "magrittr", "qdapTools", "rlang", "stringi", "tibble"]
|
|
},
|
|
"miloR": {
|
|
"name": "miloR",
|
|
"version": "2.0.0",
|
|
"sha256": "1cb5iw90h6raflgmypd2wc8y4mbsv9g8alshh30k1kjm8vlsw92y",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "BiocSingular", "Matrix", "MatrixGenerics", "RColorBrewer", "Rcpp", "RcppArmadillo", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cowplot", "dplyr", "edgeR", "ggbeeswarm", "ggplot2", "ggraph", "ggrepel", "gtools", "igraph", "irlba", "limma", "matrixStats", "numDeriv", "patchwork", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"mimager": {
|
|
"name": "mimager",
|
|
"version": "1.28.0",
|
|
"sha256": "0n535az50yvdvbjwy0rixy4lnlc0psb454xdzqp6rh718jh5yqrf",
|
|
"depends": ["Biobase", "BiocGenerics", "DBI", "S4Vectors", "affy", "affyPLM", "gtable", "oligo", "oligoClasses", "preprocessCore", "scales"]
|
|
},
|
|
"mina": {
|
|
"name": "mina",
|
|
"version": "1.12.0",
|
|
"sha256": "0fkc6cf267fcz7gqaf2grvd9dl1azvymsahszkb6w0rp289nbbn6",
|
|
"depends": ["Hmisc", "MCL", "RSpectra", "Rcpp", "RcppArmadillo", "RcppParallel", "apcluster", "biganalytics", "bigmemory", "foreach", "ggplot2", "parallelDist", "plyr", "reshape2", "stringr"]
|
|
},
|
|
"minet": {
|
|
"name": "minet",
|
|
"version": "3.62.0",
|
|
"sha256": "1627gqqk8v3sx5kgm7z3wkimbz7dpf37ljrmvwbd4z6ag2yiirbj",
|
|
"depends": ["infotheo"]
|
|
},
|
|
"minfi": {
|
|
"name": "minfi",
|
|
"version": "1.50.0",
|
|
"sha256": "1hk44wddcygh4j7jmj1b0p40hf5qdy1m78x14j19h7z9aq4azdij",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "DelayedArray", "DelayedMatrixStats", "GEOquery", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "IRanges", "MASS", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "beanplot", "bumphunter", "data_table", "genefilter", "illuminaio", "lattice", "limma", "mclust", "nlme", "nor1mix", "preprocessCore", "quadprog", "reshape", "siggenes"]
|
|
},
|
|
"mirIntegrator": {
|
|
"name": "mirIntegrator",
|
|
"version": "1.34.0",
|
|
"sha256": "1saj71y2h3zczq16ypvmvy17z95klxawiifrlrxw3b61pnf7lpn0",
|
|
"depends": ["AnnotationDbi", "ROntoTools", "Rgraphviz", "ggplot2", "graph", "org_Hs_eg_db"]
|
|
},
|
|
"mirTarRnaSeq": {
|
|
"name": "mirTarRnaSeq",
|
|
"version": "1.12.0",
|
|
"sha256": "1wn27pnmax2ay13a6mms6wrhskvqlwmg45jifbfhna1d5ly18rqh",
|
|
"depends": ["MASS", "R_utils", "assertthat", "caTools", "corrplot", "data_table", "dplyr", "ggplot2", "pheatmap", "pscl", "purrr", "reshape2", "viridis"]
|
|
},
|
|
"missMethyl": {
|
|
"name": "missMethyl",
|
|
"version": "1.38.0",
|
|
"sha256": "0fnqa7v6lgld4pdqnvgdzly73aj4a4cn8sgszicxsyn1damxsjiw",
|
|
"depends": ["AnnotationDbi", "BiasedUrn", "Biobase", "BiocGenerics", "GO_db", "GenomicRanges", "IRanges", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "IlluminaHumanMethylation450kmanifest", "IlluminaHumanMethylationEPICanno_ilm10b4_hg19", "IlluminaHumanMethylationEPICmanifest", "S4Vectors", "SummarizedExperiment", "limma", "methylumi", "minfi", "org_Hs_eg_db", "ruv", "statmod", "stringr"]
|
|
},
|
|
"missRows": {
|
|
"name": "missRows",
|
|
"version": "1.24.0",
|
|
"sha256": "0p51nnfxhz5lqxm4vbqhxczaa774g13sh65czj1kkrrzp1g65wm5",
|
|
"depends": ["MultiAssayExperiment", "S4Vectors", "ggplot2", "gtools", "plyr"]
|
|
},
|
|
"mistyR": {
|
|
"name": "mistyR",
|
|
"version": "1.12.0",
|
|
"sha256": "0w0ij222749pv89y0gq9c01cgsasw1lb3g0bx3sf6j62gdlf1gdp",
|
|
"depends": ["R_utils", "assertthat", "caret", "deldir", "digest", "distances", "dplyr", "filelock", "furrr", "ggplot2", "purrr", "ranger", "readr", "ridge", "rlang", "rlist", "stringr", "tibble", "tidyr", "tidyselect", "withr"]
|
|
},
|
|
"mitch": {
|
|
"name": "mitch",
|
|
"version": "1.16.0",
|
|
"sha256": "1x65vxjbbd7vswv9lpa0fx5l1m629n0iayb54s3xhidn3xylizsb",
|
|
"depends": ["GGally", "MASS", "beeswarm", "echarts4r", "ggplot2", "gplots", "gridExtra", "kableExtra", "knitr", "plyr", "reshape2", "rmarkdown"]
|
|
},
|
|
"mitoClone2": {
|
|
"name": "mitoClone2",
|
|
"version": "1.10.0",
|
|
"sha256": "1vmbyraranbfywk1mmr2arbzw8fsxkyqh5nkzd2w92vpahp7vn2d",
|
|
"depends": ["GenomicRanges", "Rhtslib", "S4Vectors", "deepSNV", "ggplot2", "pheatmap", "reshape2"]
|
|
},
|
|
"mixOmics": {
|
|
"name": "mixOmics",
|
|
"version": "6.28.0",
|
|
"sha256": "03pdg2hz4wnyigqakb9098ak9ww8fhwypzn006hfad0s042p9wvj",
|
|
"depends": ["BiocParallel", "MASS", "RColorBrewer", "corpcor", "dplyr", "ellipse", "ggplot2", "ggrepel", "gridExtra", "igraph", "lattice", "matrixStats", "rARPACK", "reshape2", "tidyr"]
|
|
},
|
|
"mnem": {
|
|
"name": "mnem",
|
|
"version": "1.20.0",
|
|
"sha256": "0i93fnqpf8m90bkyvgzccj2x4phg9k1wb6k8fs04qsid0b9ksnpd",
|
|
"depends": ["Linnorm", "Rcpp", "RcppEigen", "Rgraphviz", "cluster", "data_table", "e1071", "flexclust", "ggplot2", "graph", "lattice", "matrixStats", "naturalsort", "snowfall", "tsne", "wesanderson"]
|
|
},
|
|
"moanin": {
|
|
"name": "moanin",
|
|
"version": "1.12.0",
|
|
"sha256": "15agfggzbdgpx974yvixh8c8mv8wklg6zfzzr7ywpv2cixxazhwq",
|
|
"depends": ["ClusterR", "MASS", "NMI", "S4Vectors", "SummarizedExperiment", "edgeR", "limma", "matrixStats", "reshape2", "topGO", "viridis", "zoo"]
|
|
},
|
|
"mobileRNA": {
|
|
"name": "mobileRNA",
|
|
"version": "1.0.11",
|
|
"sha256": "10p37qr8wz6chh44fh1nri2db5qqghbbzbpjm02safxdx7h88081",
|
|
"depends": ["BiocGenerics", "Biostrings", "DESeq2", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "SimDesign", "SummarizedExperiment", "bioseq", "data_table", "dplyr", "edgeR", "ggplot2", "ggrepel", "pheatmap", "progress", "reticulate", "rlang", "rtracklayer", "scales", "tidyr", "tidyselect"]
|
|
},
|
|
"mogsa": {
|
|
"name": "mogsa",
|
|
"version": "1.38.0",
|
|
"sha256": "01hr97j5i20qwpck6nfr79wx31y7igz1wzr2m1zdivggb4jg94x7",
|
|
"depends": ["Biobase", "BiocGenerics", "GSEABase", "cluster", "corpcor", "genefilter", "gplots", "graphite", "svd"]
|
|
},
|
|
"monaLisa": {
|
|
"name": "monaLisa",
|
|
"version": "1.10.1",
|
|
"sha256": "1pa7q4jr21yx4qf17bs7pjk21fjp4fdlij95gw9ffc5a98513m7b",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "ComplexHeatmap", "GenomeInfoDb", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "SummarizedExperiment", "TFBSTools", "XVector", "circlize", "glmnet", "stabs", "vioplot"]
|
|
},
|
|
"monocle": {
|
|
"name": "monocle",
|
|
"version": "2.32.0",
|
|
"sha256": "0b09mf9fph0mb0zing0prc757d223858q9lj4j3kfpfjpd3jffai",
|
|
"depends": ["Biobase", "BiocGenerics", "DDRTree", "HSMMSingleCell", "MASS", "Matrix", "RANN", "Rcpp", "Rtsne", "VGAM", "biocViews", "cluster", "combinat", "dplyr", "fastICA", "ggplot2", "igraph", "irlba", "leidenbase", "limma", "matrixStats", "pheatmap", "plyr", "proxy", "reshape2", "slam", "stringr", "tibble", "viridis"]
|
|
},
|
|
"mosaics": {
|
|
"name": "mosaics",
|
|
"version": "2.42.0",
|
|
"sha256": "000bwz1z8nwzgyaz69z6krr4ksggpsq48ni9rzl25m1bc27skldj",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "Rcpp", "Rsamtools", "S4Vectors", "lattice"]
|
|
},
|
|
"mosbi": {
|
|
"name": "mosbi",
|
|
"version": "1.10.0",
|
|
"sha256": "0kvwsiwqvsphgjcflr1zjhp91k867bqg6x6gj72kl6x9an3rxpri",
|
|
"depends": ["BH", "QUBIC", "RColorBrewer", "Rcpp", "RcppParallel", "akmbiclust", "biclust", "fabia", "igraph", "isa2", "xml2"]
|
|
},
|
|
"mosdef": {
|
|
"name": "mosdef",
|
|
"version": "1.0.0",
|
|
"sha256": "14zv9mgiqcj2s34hg8wfdij1gss324rkq42clg8f3ancambj74vp",
|
|
"depends": ["AnnotationDbi", "DESeq2", "DT", "GO_db", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "clusterProfiler", "ggforce", "ggplot2", "ggrepel", "goseq", "htmltools", "rlang", "scales", "topGO"]
|
|
},
|
|
"motifStack": {
|
|
"name": "motifStack",
|
|
"version": "1.48.0",
|
|
"sha256": "15v4z1a0kg4ic411aprzc9b7i2l6c456sfj3jaxy95anw3j3iskj",
|
|
"depends": ["Biostrings", "TFBSTools", "XML", "ade4", "ggplot2", "htmlwidgets"]
|
|
},
|
|
"motifTestR": {
|
|
"name": "motifTestR",
|
|
"version": "1.0.3",
|
|
"sha256": "19m8y69cd1x79cqwgwf6360mv7kn0a2gv3lphy2i60p6vlq99s8j",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "ggplot2", "harmonicmeanp", "matrixStats", "patchwork", "rlang", "universalmotif"]
|
|
},
|
|
"motifbreakR": {
|
|
"name": "motifbreakR",
|
|
"version": "2.18.0",
|
|
"sha256": "1mxs83l8yrbcx353h0wpc0lczn1jc0y5vg59y9g9dabk41csib47",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "MotifDb", "S4Vectors", "SummarizedExperiment", "TFMPvalue", "VariantAnnotation", "matrixStats", "motifStack", "pwalign", "rtracklayer", "stringr"]
|
|
},
|
|
"motifcounter": {
|
|
"name": "motifcounter",
|
|
"version": "1.28.0",
|
|
"sha256": "1h6wbqn2xbj5ggx0sgp09cvrkcafq7i70mbskg2y9l9nryb38g2z",
|
|
"depends": ["Biostrings"]
|
|
},
|
|
"motifmatchr": {
|
|
"name": "motifmatchr",
|
|
"version": "1.26.0",
|
|
"sha256": "1wpvdg5x51cbzpqa4s2s0zl9h7fsrsp87mxxlhxs65zx6yyfj2xl",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "RcppArmadillo", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TFBSTools"]
|
|
},
|
|
"mpra": {
|
|
"name": "mpra",
|
|
"version": "1.26.2",
|
|
"sha256": "061pji88qrzclq7wyklba3492k133zzqsalx377n42fxrw0593z9",
|
|
"depends": ["BiocGenerics", "S4Vectors", "SummarizedExperiment", "limma", "scales", "statmod"]
|
|
},
|
|
"msImpute": {
|
|
"name": "msImpute",
|
|
"version": "1.14.0",
|
|
"sha256": "1qjkaa5ksd67izfw5jgg1l843jn6d7h0asp99sd340wbqcdfnyix",
|
|
"depends": ["FNN", "data_table", "dplyr", "limma", "matrixStats", "mvtnorm", "pdist", "reticulate", "scran", "softImpute", "tidyr"]
|
|
},
|
|
"msPurity": {
|
|
"name": "msPurity",
|
|
"version": "1.30.1",
|
|
"sha256": "03h492l2x8isd1h4zmr5k6xykswimqfcxfgd67xpjjr0anrc8yl0",
|
|
"depends": ["DBI", "RSQLite", "Rcpp", "dbplyr", "doSNOW", "dplyr", "fastcluster", "foreach", "ggplot2", "magrittr", "mzR", "plyr", "reshape2", "stringr"]
|
|
},
|
|
"msa": {
|
|
"name": "msa",
|
|
"version": "1.36.1",
|
|
"sha256": "16ixhinhcbf2nvdmqria231s4qhr8lzhr7yqr7ljrnnwiqadfr67",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "Rcpp", "S4Vectors"]
|
|
},
|
|
"msgbsR": {
|
|
"name": "msgbsR",
|
|
"version": "1.28.0",
|
|
"sha256": "06nbcb1nkci83kjl9l05d3vyfz4w21y0s51wg344bzjra1ycb9gl",
|
|
"depends": ["BSgenome", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "R_utils", "Rsamtools", "S4Vectors", "SummarizedExperiment", "easyRNASeq", "edgeR", "ggbio", "ggplot2", "plyr"]
|
|
},
|
|
"mslp": {
|
|
"name": "mslp",
|
|
"version": "1.6.0",
|
|
"sha256": "0qafwb6rp0r0h5iazj13q703yvld5s1si93vn4gcxk66pgg9fm3w",
|
|
"depends": ["RankProd", "data_table", "doRNG", "fmsb", "foreach", "magrittr", "org_Hs_eg_db", "pROC", "randomForest"]
|
|
},
|
|
"msmsEDA": {
|
|
"name": "msmsEDA",
|
|
"version": "1.42.0",
|
|
"sha256": "1fzw36181rw7z62qggq7j22qhq8zrblpmv8qkqlfg140ywvwv08a",
|
|
"depends": ["MASS", "MSnbase", "RColorBrewer", "gplots"]
|
|
},
|
|
"msmsTests": {
|
|
"name": "msmsTests",
|
|
"version": "1.42.0",
|
|
"sha256": "0fadwss9z4bfgkhrrqv322j8x40l5cl4ib85057h4fn03qdijqhq",
|
|
"depends": ["MSnbase", "edgeR", "msmsEDA", "qvalue"]
|
|
},
|
|
"msqrob2": {
|
|
"name": "msqrob2",
|
|
"version": "1.12.0",
|
|
"sha256": "1mg4a9mjvzj4y6jw5qpz53wg1h7z6a5l2b20ibp0wr67rns5xkix",
|
|
"depends": ["BiocParallel", "MASS", "Matrix", "MultiAssayExperiment", "QFeatures", "SummarizedExperiment", "codetools", "limma", "lme4", "purrr"]
|
|
},
|
|
"multiClust": {
|
|
"name": "multiClust",
|
|
"version": "1.34.0",
|
|
"sha256": "1md8zli6fhcb5ccy6yksl6c62vfqc2ifznxvpvzch2j1h2fswx84",
|
|
"depends": ["amap", "cluster", "ctc", "dendextend", "mclust", "survival"]
|
|
},
|
|
"multiGSEA": {
|
|
"name": "multiGSEA",
|
|
"version": "1.14.0",
|
|
"sha256": "14mn8r3n1r9mrpng3b6hl20mmwxz3ns122qnx59lsja7danl9w0w",
|
|
"depends": ["AnnotationDbi", "dplyr", "fgsea", "graphite", "magrittr", "metaboliteIDmapping", "metap", "rappdirs", "rlang"]
|
|
},
|
|
"multiHiCcompare": {
|
|
"name": "multiHiCcompare",
|
|
"version": "1.22.0",
|
|
"sha256": "0h5b8yaqxy0gpm1kndv0dyz6pvacdy7vh3mbdkbz04q4ng1jnk12",
|
|
"depends": ["BiocParallel", "GenomeInfoDb", "GenomeInfoDbData", "GenomicRanges", "HiCcompare", "aggregation", "data_table", "dplyr", "edgeR", "pbapply", "pheatmap", "qqman"]
|
|
},
|
|
"multiMiR": {
|
|
"name": "multiMiR",
|
|
"version": "1.26.0",
|
|
"sha256": "0pzifw4b61v1wrfy6lsb5i4xxpmhl3g6sml09akfdy0skfx5lam8",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "RCurl", "XML", "dplyr", "purrr", "tibble"]
|
|
},
|
|
"multiWGCNA": {
|
|
"name": "multiWGCNA",
|
|
"version": "1.2.0",
|
|
"sha256": "1y2rwwy5q2ak861hg8nm5f13rmf2b9dmhsmjwvxc75nzdjg9yqcz",
|
|
"depends": ["SummarizedExperiment", "WGCNA", "cowplot", "data_table", "dcanr", "dplyr", "flashClust", "ggalluvial", "ggplot2", "ggrepel", "igraph", "patchwork", "readr", "reshape2", "scales", "stringr"]
|
|
},
|
|
"multicrispr": {
|
|
"name": "multicrispr",
|
|
"version": "1.14.0",
|
|
"sha256": "1625pqby6b0k67vn1h90j5899q5rhc815b64nywnvxlaia7hjvpm",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "CRISPRseek", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Rbowtie", "data_table", "ggplot2", "karyoploteR", "magrittr", "plyranges", "reticulate", "rtracklayer", "stringi", "tidyr", "tidyselect"]
|
|
},
|
|
"multiscan": {
|
|
"name": "multiscan",
|
|
"version": "1.64.0",
|
|
"sha256": "0cp2fy4hl5cdgrii9nl53cd22h87hxsdixhpdi9is914v9s42rkr",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"multistateQTL": {
|
|
"name": "multistateQTL",
|
|
"version": "1.0.0",
|
|
"sha256": "1y983wj9awz29rv2fg8ryyindza8gjn54dn775p00zqs7qjnny3m",
|
|
"depends": ["ComplexHeatmap", "QTLExperiment", "S4Vectors", "SummarizedExperiment", "circlize", "collapse", "data_table", "dplyr", "fitdistrplus", "ggplot2", "mashr", "matrixStats", "tidyr", "viridis"]
|
|
},
|
|
"multtest": {
|
|
"name": "multtest",
|
|
"version": "2.60.0",
|
|
"sha256": "04dv5rcqwpv0im7j3hvcj8hjybgs4a384zgnjyqbcipcicd2rjz4",
|
|
"depends": ["Biobase", "BiocGenerics", "MASS", "survival"]
|
|
},
|
|
"mumosa": {
|
|
"name": "mumosa",
|
|
"version": "1.12.0",
|
|
"sha256": "1r3i19q5i2pfs8xaag4qcb64hxwkz49msbvv454n5cb2zp1nafvd",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "IRanges", "Matrix", "S4Vectors", "ScaledMatrix", "SingleCellExperiment", "SummarizedExperiment", "batchelor", "beachmat", "igraph", "metapod", "scran", "scuttle", "uwot"]
|
|
},
|
|
"muscat": {
|
|
"name": "muscat",
|
|
"version": "1.18.0",
|
|
"sha256": "1gafcq3p693f28gz3p8hk8mlxd9zja95h8953sr56n7krfffy1gi",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "DESeq2", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "blme", "data_table", "dplyr", "edgeR", "ggplot2", "glmmTMB", "limma", "lme4", "lmerTest", "matrixStats", "progress", "purrr", "scales", "scater", "sctransform", "scuttle", "variancePartition", "viridis"]
|
|
},
|
|
"muscle": {
|
|
"name": "muscle",
|
|
"version": "3.46.0",
|
|
"sha256": "1jx71gzjd9jnr1xa0c0zzjg5a8qhf8czrh4mwbvnclr7g1l21cdq",
|
|
"depends": ["Biostrings"]
|
|
},
|
|
"musicatk": {
|
|
"name": "musicatk",
|
|
"version": "1.14.1",
|
|
"sha256": "1bz303lmxjvj24pb03mc64pv0595snhn6g99q3a40w73sqlxh14c",
|
|
"depends": ["BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Hsapiens_UCSC_hg38", "BSgenome_Mmusculus_UCSC_mm10", "BSgenome_Mmusculus_UCSC_mm9", "Biostrings", "ComplexHeatmap", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "MASS", "MCMCprecision", "Matrix", "NMF", "S4Vectors", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "VariantAnnotation", "cluster", "data_table", "decompTumor2Sig", "dplyr", "factoextra", "ggplot2", "ggpubr", "ggrepel", "gridExtra", "gtools", "maftools", "magrittr", "matrixTests", "philentropy", "plotly", "rlang", "shiny", "stringi", "stringr", "tibble", "tidyr", "tidyverse", "topicmodels", "uwot"]
|
|
},
|
|
"mygene": {
|
|
"name": "mygene",
|
|
"version": "1.40.0",
|
|
"sha256": "0ybvabgdjm63yvvkpkldqddvdcfsncr25rnsw17kbdachar29shj",
|
|
"depends": ["GenomicFeatures", "Hmisc", "S4Vectors", "httr", "jsonlite", "plyr", "sqldf", "txdbmaker"]
|
|
},
|
|
"myvariant": {
|
|
"name": "myvariant",
|
|
"version": "1.34.0",
|
|
"sha256": "1f82x3vahbsccvyg5gvi34llanzscpvp0pbqhm1ki9frx9hqwysz",
|
|
"depends": ["GenomeInfoDb", "Hmisc", "S4Vectors", "VariantAnnotation", "httr", "jsonlite", "magrittr", "plyr"]
|
|
},
|
|
"mzID": {
|
|
"name": "mzID",
|
|
"version": "1.42.0",
|
|
"sha256": "0kh9swzh3hvi6qi64cgr13f22s1mgvz2rid5psb1gy4l3biwadj5",
|
|
"depends": ["ProtGenerics", "XML", "doParallel", "foreach", "iterators", "plyr"]
|
|
},
|
|
"mzR": {
|
|
"name": "mzR",
|
|
"version": "2.38.0",
|
|
"sha256": "02dz23xns9ryz98nip1w68h9q5ckxpyl1zvzklsp4j7p9z2400dk",
|
|
"depends": ["Biobase", "BiocGenerics", "ProtGenerics", "Rcpp", "Rhdf5lib", "ncdf4"]
|
|
},
|
|
"ncGTW": {
|
|
"name": "ncGTW",
|
|
"version": "1.18.0",
|
|
"sha256": "1x9q4c3xkz984nz33bbh753181qx655zkl46i00h7a9khnab9cdv",
|
|
"depends": ["BiocParallel", "Rcpp", "xcms"]
|
|
},
|
|
"ncRNAtools": {
|
|
"name": "ncRNAtools",
|
|
"version": "1.14.0",
|
|
"sha256": "151s12kg88x4nymzvpzwlfil7rvrbaa99agfxzz03r8dyjnqrqlq",
|
|
"depends": ["GenomicRanges", "IRanges", "S4Vectors", "ggplot2", "httr", "xml2"]
|
|
},
|
|
"ncdfFlow": {
|
|
"name": "ncdfFlow",
|
|
"version": "2.50.0",
|
|
"sha256": "1mbq3190nxlzhfb58i7s2f5f9fngda1icnihmyplagh64savlpcn",
|
|
"depends": ["BH", "Biobase", "BiocGenerics", "Rhdf5lib", "cpp11", "flowCore", "zlibbioc"]
|
|
},
|
|
"ndexr": {
|
|
"name": "ndexr",
|
|
"version": "1.26.0",
|
|
"sha256": "1jl7z4a1rdsivc774k15v3q40isgp1ly3lsmgflfkq7jsx62xl5j",
|
|
"depends": ["RCX", "httr", "jsonlite", "plyr", "tidyr"]
|
|
},
|
|
"nearBynding": {
|
|
"name": "nearBynding",
|
|
"version": "1.14.0",
|
|
"sha256": "0ni6mipdbwzc0gi8mws1d1b8ylj0pjlvi81kv9r3pm93psr67pj3",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "R_utils", "Rsamtools", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "dplyr", "ggplot2", "gplots", "magrittr", "matrixStats", "plyranges", "rlang", "rtracklayer", "transport"]
|
|
},
|
|
"nempi": {
|
|
"name": "nempi",
|
|
"version": "1.12.0",
|
|
"sha256": "069b7kmpz38s7240ac8iw8m80w62lrly01khfl8b3kikhlr82jcq",
|
|
"depends": ["e1071", "epiNEM", "matrixStats", "mnem", "naturalsort", "nnet", "randomForest"]
|
|
},
|
|
"netDx": {
|
|
"name": "netDx",
|
|
"version": "1.16.0",
|
|
"sha256": "00ghcj5hzb06pi9aj2rdnasyqgqnvr9qjb0m6b0476yv2mx5x24k",
|
|
"depends": ["BiocFileCache", "GenomeInfoDb", "GenomicRanges", "IRanges", "MultiAssayExperiment", "RColorBrewer", "ROCR", "Rtsne", "S4Vectors", "bigmemory", "combinat", "doParallel", "foreach", "ggplot2", "glmnet", "httr", "igraph", "plotrix", "pracma", "rappdirs", "reshape2"]
|
|
},
|
|
"netSmooth": {
|
|
"name": "netSmooth",
|
|
"version": "1.24.0",
|
|
"sha256": "0nry64lvqwwq672c6callfjfa0y14igvqpvrvfs2hm0qj8qmg2q8",
|
|
"depends": ["DelayedArray", "HDF5Array", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "cluster", "clusterExperiment", "data_table", "entropy", "scater"]
|
|
},
|
|
"netZooR": {
|
|
"name": "netZooR",
|
|
"version": "1.8.0",
|
|
"sha256": "0z1wi0csnpjz70q5pl5wmdfgqnq66yk9gysxxid8rmkagqxvbg73",
|
|
"depends": ["AnnotationDbi", "Biobase", "GO_db", "GOstats", "MASS", "Matrix", "RCy3", "STRINGdb", "assertthat", "data_table", "doParallel", "dplyr", "foreach", "ggdendro", "ggplot2", "gplots", "igraph", "matrixStats", "matrixcalc", "nnet", "org_Hs_eg_db", "pandaR", "penalized", "reshape", "reshape2", "reticulate", "tidyr", "vegan", "viridisLite", "yarn"]
|
|
},
|
|
"netboost": {
|
|
"name": "netboost",
|
|
"version": "2.12.0",
|
|
"sha256": "0xirmys108qhxg7073vm90463a7qs6z557516ff1yczhldaq4psy",
|
|
"depends": ["BiocStyle", "R_utils", "Rcpp", "RcppParallel", "WGCNA", "colorspace", "dynamicTreeCut", "impute"]
|
|
},
|
|
"nethet": {
|
|
"name": "nethet",
|
|
"version": "1.36.0",
|
|
"sha256": "1mr42pdm2sjpbmiiwjpqd0pvbnc5imlgmg14swc2pp66dl60g7b3",
|
|
"depends": ["CompQuadForm", "GSA", "GeneNet", "ICSNP", "ggm", "ggplot2", "glasso", "glmnet", "huge", "limma", "mclust", "multtest", "mvtnorm", "network"]
|
|
},
|
|
"netprioR": {
|
|
"name": "netprioR",
|
|
"version": "1.30.0",
|
|
"sha256": "0kgsgjc2q4wvdwbqfx79ql85k6xc60165zair7nwc89wn07rnswy",
|
|
"depends": ["Matrix", "doParallel", "dplyr", "foreach", "ggplot2", "gridExtra", "pROC", "sparseMVN"]
|
|
},
|
|
"netresponse": {
|
|
"name": "netresponse",
|
|
"version": "1.64.0",
|
|
"sha256": "13lynfqsbv8cp6hd452bky4mkf029jwvryx8mzdcx15r4hwsqh5r",
|
|
"depends": ["BiocStyle", "RColorBrewer", "Rgraphviz", "ggplot2", "graph", "igraph", "mclust", "minet", "plyr", "qvalue", "reshape2", "rmarkdown"]
|
|
},
|
|
"ngsReports": {
|
|
"name": "ngsReports",
|
|
"version": "2.6.1",
|
|
"sha256": "13dmy1g822h8w9f2ylvs40zn810zxamy9jr7vncsbbk6cr87h9lg",
|
|
"depends": ["BiocGenerics", "Biostrings", "checkmate", "dplyr", "forcats", "ggdendro", "ggplot2", "jsonlite", "lifecycle", "lubridate", "patchwork", "plotly", "reshape2", "rlang", "rmarkdown", "scales", "stringr", "tibble", "tidyr", "tidyselect", "zoo"]
|
|
},
|
|
"nipalsMCIA": {
|
|
"name": "nipalsMCIA",
|
|
"version": "1.2.0",
|
|
"sha256": "0r14hmglxlrwryc6qwn20vfrmy5k2pk7l73d3fz5bmfja06ms6n5",
|
|
"depends": ["ComplexHeatmap", "MultiAssayExperiment", "RSpectra", "SummarizedExperiment", "dplyr", "fgsea", "ggplot2", "pracma", "rlang", "scales"]
|
|
},
|
|
"nnNorm": {
|
|
"name": "nnNorm",
|
|
"version": "2.68.0",
|
|
"sha256": "1r3klap7yazz73jh7dja1wlgg9ladfw1aaljirbiq1dvlb1q1i8f",
|
|
"depends": ["marray", "nnet"]
|
|
},
|
|
"nnSVG": {
|
|
"name": "nnSVG",
|
|
"version": "1.8.0",
|
|
"sha256": "00346z7i5hgljylv00l5pcmj3y769mqnhac0f4l7jhiww3xswfbs",
|
|
"depends": ["BRISC", "BiocParallel", "Matrix", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "matrixStats"]
|
|
},
|
|
"normalize450K": {
|
|
"name": "normalize450K",
|
|
"version": "1.32.0",
|
|
"sha256": "0iavswwgv0qhnwlf99nxrpmswbd5m9ihi7i68gby07hmsl5gci2a",
|
|
"depends": ["Biobase", "illuminaio", "quadprog"]
|
|
},
|
|
"normr": {
|
|
"name": "normr",
|
|
"version": "1.30.0",
|
|
"sha256": "1lkh4a6c499g4wicj4khkyhz361k4q0aydk4gc122vn4877z14c6",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rcpp", "bamsignals", "qvalue", "rtracklayer"]
|
|
},
|
|
"npGSEA": {
|
|
"name": "npGSEA",
|
|
"version": "1.40.0",
|
|
"sha256": "1d9q7jy6axmh62xs4m1lxfh8j7vwq4k995l28hcfwh7qk38k4gqr",
|
|
"depends": ["Biobase", "BiocGenerics", "GSEABase"]
|
|
},
|
|
"nuCpos": {
|
|
"name": "nuCpos",
|
|
"version": "1.22.0",
|
|
"sha256": "03qv4p5mvwbnm2grfnrszphv3c0k2lwja5cbq27cv6il7bnz8m0m",
|
|
"depends": []
|
|
},
|
|
"nucleR": {
|
|
"name": "nucleR",
|
|
"version": "2.36.0",
|
|
"sha256": "1gbn4rpgil579xkrwd78wc7h6h0f8j1kjz0vvlijy63i6g380wfk",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "dplyr", "ggplot2", "magrittr"]
|
|
},
|
|
"nucleoSim": {
|
|
"name": "nucleoSim",
|
|
"version": "1.32.0",
|
|
"sha256": "0f64601jm3bvcdpls3d5njpparkb5h5v6zvhb1jf46fdvyg4xcss",
|
|
"depends": ["IRanges", "S4Vectors"]
|
|
},
|
|
"nullranges": {
|
|
"name": "nullranges",
|
|
"version": "1.10.0",
|
|
"sha256": "0a20aqqja5nkp39v7mxjnc98in63zhl00mnhsm952ja7v1l2xfsw",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "S4Vectors", "data_table", "ggplot2", "ggridges", "plyranges", "progress", "rlang", "scales"]
|
|
},
|
|
"occugene": {
|
|
"name": "occugene",
|
|
"version": "1.64.0",
|
|
"sha256": "01dgpbz3w5bbbhiz67fripxw1pwdd1iinnywvm9xgzjkdhr3g18y",
|
|
"depends": []
|
|
},
|
|
"octad": {
|
|
"name": "octad",
|
|
"version": "1.6.0",
|
|
"sha256": "1nlad40c9mzs74zrc82smmmyknw4dr88c6zm0ywm62v0wb8l22n7",
|
|
"depends": ["AnnotationHub", "Biobase", "DESeq2", "EDASeq", "ExperimentHub", "GSVA", "RUVSeq", "Rfast", "S4Vectors", "data_table", "dplyr", "edgeR", "foreach", "ggplot2", "htmlwidgets", "httr", "limma", "magrittr", "octad_db", "plotly", "qpdf", "reshape2", "rhdf5"]
|
|
},
|
|
"odseq": {
|
|
"name": "odseq",
|
|
"version": "1.32.0",
|
|
"sha256": "03bhlarifh5r13ii7a5kd6gj9w0zdgjz9p89pj0lhgx2lglh2nm8",
|
|
"depends": ["kebabs", "mclust", "msa"]
|
|
},
|
|
"oligo": {
|
|
"name": "oligo",
|
|
"version": "1.68.2",
|
|
"sha256": "0ch6b4rg5v6fj0fgniqiigx1gnnqgwji90bxqngllman388bx867",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "DBI", "RSQLite", "affxparser", "affyio", "ff", "oligoClasses", "preprocessCore", "zlibbioc"]
|
|
},
|
|
"oligoClasses": {
|
|
"name": "oligoClasses",
|
|
"version": "1.66.0",
|
|
"sha256": "15icfcmpwrnjpyahc4v168fpcbsml6x7h4drmsyh9l8d1284yb4n",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocManager", "Biostrings", "DBI", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "SummarizedExperiment", "affyio", "ff", "foreach"]
|
|
},
|
|
"omada": {
|
|
"name": "omada",
|
|
"version": "1.6.0",
|
|
"sha256": "1by6im4frl724yif9pjgcmp016hahj5xj35h1zqa4k5g8nw54f9s",
|
|
"depends": ["Rcpp", "clValid", "diceR", "dplyr", "fpc", "genieclust", "ggplot2", "glmnet", "kernlab", "pdfCluster", "reshape"]
|
|
},
|
|
"omicRexposome": {
|
|
"name": "omicRexposome",
|
|
"version": "1.26.0",
|
|
"sha256": "0p3x3pp3337nvmqqssrbfh6zn2fp260ss8wjc2c90b0gr4c4h6wc",
|
|
"depends": ["Biobase", "MultiDataSet", "PMA", "SmartSVA", "SummarizedExperiment", "ggplot2", "ggrepel", "gridExtra", "isva", "limma", "omicade4", "rexposome", "stringr", "sva"]
|
|
},
|
|
"omicade4": {
|
|
"name": "omicade4",
|
|
"version": "1.44.0",
|
|
"sha256": "18gp8qpmnbc5yjqyvvwvmrdybvm6zddc0r8bfglxz5wg4a91h4wk",
|
|
"depends": ["Biobase", "ade4", "made4"]
|
|
},
|
|
"omicplotR": {
|
|
"name": "omicplotR",
|
|
"version": "1.24.0",
|
|
"sha256": "1zb4xik2rvznbigfh42k97mlfc4ls997cyv4ixd34qp0z3929djc",
|
|
"depends": ["ALDEx2", "DT", "compositions", "jsonlite", "knitr", "matrixStats", "rmarkdown", "shiny", "vegan", "zCompositions"]
|
|
},
|
|
"omicsPrint": {
|
|
"name": "omicsPrint",
|
|
"version": "1.24.0",
|
|
"sha256": "0b5mccw1vpcw1i38lcy6cjr6im0iw17a3z8vwfs7f2z7nj72p8cf",
|
|
"depends": ["MASS", "MultiAssayExperiment", "RaggedExperiment", "SummarizedExperiment", "matrixStats"]
|
|
},
|
|
"omicsViewer": {
|
|
"name": "omicsViewer",
|
|
"version": "1.8.0",
|
|
"sha256": "0ij7slf4y708gdw06nmm2w7p3svcadvc9s44rzkgjb66is4h375g",
|
|
"depends": ["Biobase", "DT", "Matrix", "RColorBrewer", "ROCR", "RSQLite", "S4Vectors", "SummarizedExperiment", "beeswarm", "curl", "drc", "fastmatch", "fgsea", "flatxml", "ggplot2", "ggseqlogo", "htmlwidgets", "httr", "matrixStats", "networkD3", "openxlsx", "plotly", "psych", "reshape2", "shiny", "shinyWidgets", "shinybusy", "shinycssloaders", "shinyjs", "shinythemes", "stringr", "survival", "survminer"]
|
|
},
|
|
"ompBAM": {
|
|
"name": "ompBAM",
|
|
"version": "1.8.0",
|
|
"sha256": "12r57wgqszwlm4agfbs0gfakhh87y8jpaalv2rq38nif479hpmyz",
|
|
"depends": ["Rcpp", "zlibbioc"]
|
|
},
|
|
"oncomix": {
|
|
"name": "oncomix",
|
|
"version": "1.26.0",
|
|
"sha256": "01ap90pyj3xdnhryiywa57pl0d8lj4q7qxxvf8ahhbr0a2hy8py0",
|
|
"depends": ["RColorBrewer", "SummarizedExperiment", "ggplot2", "ggrepel", "mclust"]
|
|
},
|
|
"oncoscanR": {
|
|
"name": "oncoscanR",
|
|
"version": "1.6.0",
|
|
"sha256": "1n5rcnbb06pl3b27wkzzmz0l7g3hgfjpi7v7anbhscr2i1hy46b9",
|
|
"depends": ["GenomicRanges", "IRanges", "S4Vectors", "magrittr", "readr"]
|
|
},
|
|
"onlineFDR": {
|
|
"name": "onlineFDR",
|
|
"version": "2.12.0",
|
|
"sha256": "1sivrkb21dmb7wgdxd0q3nmjlvaqrh21c20s4lq8azn685frlznh",
|
|
"depends": ["Rcpp", "RcppProgress", "progress"]
|
|
},
|
|
"ontoProc": {
|
|
"name": "ontoProc",
|
|
"version": "1.26.4",
|
|
"sha256": "0d3fypwwnb9qjdfkhd6w0ppy3hdp7ipds78300kq9yp0a6v7a9w2",
|
|
"depends": ["AnnotationHub", "Biobase", "BiocFileCache", "DT", "R_utils", "Rgraphviz", "S4Vectors", "SummarizedExperiment", "dplyr", "graph", "httr", "igraph", "magrittr", "ontologyIndex", "ontologyPlot", "reticulate", "shiny"]
|
|
},
|
|
"openCyto": {
|
|
"name": "openCyto",
|
|
"version": "2.16.1",
|
|
"sha256": "13ndjvm3l5pl1jgv7bqp78didqq3rx6br4p1ncqqp68mm048f2ll",
|
|
"depends": ["BH", "Biobase", "BiocGenerics", "RBGL", "RColorBrewer", "cpp11", "data_table", "flowClust", "flowCore", "flowViz", "flowWorkspace", "graph", "ncdfFlow"]
|
|
},
|
|
"openPrimeR": {
|
|
"name": "openPrimeR",
|
|
"version": "1.26.0",
|
|
"sha256": "1wcwg0hpnmfzzbxsqggmgim15f4zky0xx3ynyypykyh1c5i3f4yi",
|
|
"depends": ["BiocGenerics", "Biostrings", "DECIPHER", "GenomicRanges", "Hmisc", "IRanges", "RColorBrewer", "S4Vectors", "XML", "ape", "digest", "dplyr", "foreach", "ggplot2", "lpSolveAPI", "magrittr", "openxlsx", "plyr", "pwalign", "reshape2", "scales", "seqinr", "stringdist", "stringr", "uniqtag"]
|
|
},
|
|
"openPrimeRui": {
|
|
"name": "openPrimeRui",
|
|
"version": "1.26.0",
|
|
"sha256": "0w00ya6xb70am000hybrxgcq8bpd950w36n01v4l0pfmfcvqd9fa",
|
|
"depends": ["DT", "openPrimeR", "rmarkdown", "shiny", "shinyBS", "shinyjs"]
|
|
},
|
|
"oposSOM": {
|
|
"name": "oposSOM",
|
|
"version": "2.22.0",
|
|
"sha256": "1i6jkhnb7b420zacxxiv4c0il1n7yrvg5v4qnd465d1s2wifwndn",
|
|
"depends": ["Biobase", "RCurl", "Rcpp", "RcppParallel", "XML", "ape", "biomaRt", "fastICA", "fdrtool", "graph", "igraph", "pixmap", "png", "scatterplot3d", "tsne"]
|
|
},
|
|
"oppar": {
|
|
"name": "oppar",
|
|
"version": "1.32.0",
|
|
"sha256": "1bdcddyw1m51x6fs928j8qmcfdkw21hi7xvgih97nyddnnl5ad5x",
|
|
"depends": ["Biobase", "GSEABase", "GSVA"]
|
|
},
|
|
"oppti": {
|
|
"name": "oppti",
|
|
"version": "1.18.0",
|
|
"sha256": "1lmjvncp8h3p9vb4979v5spw2yp7w2mj4w60b728njhp9cxh8k6g",
|
|
"depends": ["RColorBrewer", "devtools", "ggplot2", "knitr", "limma", "parallelDist", "pheatmap", "reshape"]
|
|
},
|
|
"optimalFlow": {
|
|
"name": "optimalFlow",
|
|
"version": "1.16.0",
|
|
"sha256": "1b7a7xca1fb7732hwzcgz79p5pp6xsy0z5az5inv6g8z7a2wpngn",
|
|
"depends": ["Rfast", "dbscan", "doParallel", "dplyr", "ellipse", "flowMeans", "foreach", "optimalFlowData", "randomForest", "rgl", "rlang", "robustbase", "transport"]
|
|
},
|
|
"orthogene": {
|
|
"name": "orthogene",
|
|
"version": "1.10.0",
|
|
"sha256": "12rf9xjziziw7r02assnpa4ncryyqkfibj3bhbrq8vp7ygvbn64a",
|
|
"depends": ["DelayedArray", "Matrix", "babelgene", "data_table", "dplyr", "ggplot2", "ggpubr", "ggtree", "gprofiler2", "grr", "homologene", "jsonlite", "patchwork", "repmis"]
|
|
},
|
|
"orthos": {
|
|
"name": "orthos",
|
|
"version": "1.2.0",
|
|
"sha256": "0y5q9dmn6qwq8psgclwzca3bpfiyi7xh325hxj328h3fis1sm9xb",
|
|
"depends": ["AnnotationHub", "BiocParallel", "DelayedArray", "ExperimentHub", "HDF5Array", "S4Vectors", "SummarizedExperiment", "basilisk", "colorspace", "cowplot", "dplyr", "ggplot2", "ggpubr", "ggrepel", "ggsci", "keras", "orthosData", "plyr", "reticulate", "rlang", "tensorflow", "tidyr"]
|
|
},
|
|
"pRoloc": {
|
|
"name": "pRoloc",
|
|
"version": "1.44.1",
|
|
"sha256": "09vm0308qzc5hrvck2ksyn5f4zgdg9jpgcxg4zzrczs4ygp5jpzz",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "FNN", "LaplacesDemon", "MASS", "MLInterfaces", "MSnbase", "RColorBrewer", "Rcpp", "RcppArmadillo", "biomaRt", "caret", "class", "coda", "dendextend", "e1071", "ggplot2", "gtools", "hexbin", "kernlab", "knitr", "lattice", "mclust", "mixtools", "mvtnorm", "nnet", "plyr", "proxy", "randomForest", "sampling", "scales"]
|
|
},
|
|
"pRolocGUI": {
|
|
"name": "pRolocGUI",
|
|
"version": "2.14.0",
|
|
"sha256": "0lxnvh2hx7zayfmdfiqhlwp3gmpx0bsz3ds67zalhvf1xmn2cn88",
|
|
"depends": ["Biobase", "BiocGenerics", "DT", "MSnbase", "colorspace", "colourpicker", "dplyr", "ggplot2", "pRoloc", "scales", "shiny", "shinyWidgets", "shinydashboard", "shinydashboardPlus", "shinyhelper", "shinyjs"]
|
|
},
|
|
"packFinder": {
|
|
"name": "packFinder",
|
|
"version": "1.16.0",
|
|
"sha256": "0y8sw0vyfry6vfn4k9w81m9s4a98bhc5h2a4nvy666qjganhfm8i",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "S4Vectors", "ape", "kmer"]
|
|
},
|
|
"padma": {
|
|
"name": "padma",
|
|
"version": "1.14.1",
|
|
"sha256": "0h0hhdq1hxvysf7hrk0jpy1jb1b7zq8gh6k905glhqykmdzm0p25",
|
|
"depends": ["FactoMineR", "MultiAssayExperiment", "S4Vectors", "SummarizedExperiment"]
|
|
},
|
|
"pageRank": {
|
|
"name": "pageRank",
|
|
"version": "1.14.0",
|
|
"sha256": "0d7mgxssyc7bbcjhhrlj4y7v4xgw16y499c0k6wcrh3y4f24xwna",
|
|
"depends": ["GenomicRanges", "igraph", "motifmatchr"]
|
|
},
|
|
"paircompviz": {
|
|
"name": "paircompviz",
|
|
"version": "1.42.0",
|
|
"sha256": "13znncas7s3ihjvv401fjbsg80iliv4afqw9w4jyazz4vdwgp400",
|
|
"depends": ["Rgraphviz"]
|
|
},
|
|
"pairedGSEA": {
|
|
"name": "pairedGSEA",
|
|
"version": "1.4.0",
|
|
"sha256": "181x2r7af4243b2jmsc71gi8jlq80d4gzkcprr0dk0sis9bh1pqj",
|
|
"depends": ["BiocParallel", "DESeq2", "DEXSeq", "S4Vectors", "SummarizedExperiment", "aggregation", "fgsea", "ggplot2", "limma", "sva"]
|
|
},
|
|
"pairkat": {
|
|
"name": "pairkat",
|
|
"version": "1.10.0",
|
|
"sha256": "1rxwf8nlmc18h6zi95v4xhs5hqaygpba15wsc06msslzr905s6id",
|
|
"depends": ["CompQuadForm", "KEGGREST", "SummarizedExperiment", "data_table", "igraph", "magrittr", "tibble"]
|
|
},
|
|
"pandaR": {
|
|
"name": "pandaR",
|
|
"version": "1.36.0",
|
|
"sha256": "1cgy9sx5nk94d43baxsm25lh64fmmmznxd832r2wnj6a7p07bbj2",
|
|
"depends": ["Biobase", "BiocGenerics", "RUnit", "ggplot2", "hexbin", "igraph", "matrixStats", "plyr", "reshape"]
|
|
},
|
|
"panelcn_mops": {
|
|
"name": "panelcn.mops",
|
|
"version": "1.26.0",
|
|
"sha256": "1fmb1zixg909nqdf34z2aq0llzzsrf4pd73pc8xyachivyx73p4a",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "cn_mops"]
|
|
},
|
|
"panp": {
|
|
"name": "panp",
|
|
"version": "1.74.0",
|
|
"sha256": "0w5hbjpdwy6g3x38c64r29106s1smyakzpm1qb50f6g8mf99lsvy",
|
|
"depends": ["Biobase", "affy"]
|
|
},
|
|
"pareg": {
|
|
"name": "pareg",
|
|
"version": "1.8.0",
|
|
"sha256": "1b9vvn1ppw1vbfmkzkbd6b01pkqnsknbrjv1js983dpjv23x6xlb",
|
|
"depends": ["DOSE", "Matrix", "basilisk", "devtools", "doFuture", "doRNG", "dplyr", "foreach", "future", "ggplot2", "ggraph", "ggrepel", "glue", "hms", "igraph", "keras", "logger", "magrittr", "nloptr", "progress", "proxy", "purrr", "reticulate", "rlang", "stringr", "tensorflow", "tfprobability", "tibble", "tidygraph", "tidyr"]
|
|
},
|
|
"parglms": {
|
|
"name": "parglms",
|
|
"version": "1.36.0",
|
|
"sha256": "1b63nkd50pn1mgr8l0svi3h8rplb5g50a2xvkxa7j26w6ss8302v",
|
|
"depends": ["BatchJobs", "BiocGenerics", "doParallel", "foreach"]
|
|
},
|
|
"parody": {
|
|
"name": "parody",
|
|
"version": "1.62.0",
|
|
"sha256": "0k2gc8p9dk7j21n6hxdqjna09m6cggx47spkmxkqvwqm97mwqzrp",
|
|
"depends": []
|
|
},
|
|
"partCNV": {
|
|
"name": "partCNV",
|
|
"version": "1.2.0",
|
|
"sha256": "0f632ih6fy46923a4cf7njkgaqwkmgbwz74djbd2awsnk02afbbw",
|
|
"depends": ["AnnotationHub", "GenomicRanges", "Seurat", "SingleCellExperiment", "data_table", "depmixS4", "magrittr"]
|
|
},
|
|
"pathRender": {
|
|
"name": "pathRender",
|
|
"version": "1.72.0",
|
|
"sha256": "0dcds0agwphriqc0d8rw7yycqvxzhv7jj4xs2lvwhzwqrkxicpf1",
|
|
"depends": ["AnnotationDbi", "RColorBrewer", "Rgraphviz", "cMAP", "graph"]
|
|
},
|
|
"pathifier": {
|
|
"name": "pathifier",
|
|
"version": "1.42.0",
|
|
"sha256": "1m21713zj4i5iygrj0ygc5zwcrw6038hb486l6c5nvykhzc5w64p",
|
|
"depends": ["R_oo", "princurve"]
|
|
},
|
|
"pathlinkR": {
|
|
"name": "pathlinkR",
|
|
"version": "1.0.1",
|
|
"sha256": "1zwcrxi926m6zyhv3na7jv8cj61m93a3mg7zz6rqblvxrg218gmg",
|
|
"depends": ["ComplexHeatmap", "circlize", "clusterProfiler", "dplyr", "ggforce", "ggplot2", "ggpubr", "ggraph", "ggrepel", "igraph", "purrr", "sigora", "stringr", "tibble", "tidygraph", "tidyr", "vegan", "visNetwork"]
|
|
},
|
|
"pathview": {
|
|
"name": "pathview",
|
|
"version": "1.44.0",
|
|
"sha256": "1papw23dhhkqmm864dc3xm028xm0ywc6sjcm7xk93f2j7yj65x0v",
|
|
"depends": ["AnnotationDbi", "KEGGREST", "KEGGgraph", "Rgraphviz", "XML", "graph", "org_Hs_eg_db", "png"]
|
|
},
|
|
"pathwayPCA": {
|
|
"name": "pathwayPCA",
|
|
"version": "1.20.0",
|
|
"sha256": "055jqyzi6lq056ibdyzxy5mzcs5f93im2fbiz73a33bqndpc9s5i",
|
|
"depends": ["lars", "survival"]
|
|
},
|
|
"paxtoolsr": {
|
|
"name": "paxtoolsr",
|
|
"version": "1.38.0",
|
|
"sha256": "0m3r8ynqkhksgj0d3si3wcnk5a801g1qklin8zm81cr1nlfx67gw",
|
|
"depends": ["R_utils", "XML", "httr", "igraph", "jsonlite", "plyr", "rJava", "rappdirs", "readr", "rjson"]
|
|
},
|
|
"pcaExplorer": {
|
|
"name": "pcaExplorer",
|
|
"version": "2.30.0",
|
|
"sha256": "1szl2gyhw55ad4phcb7qn14amjb6xg65l3p4hnjzp6rda2cy9437",
|
|
"depends": ["AnnotationDbi", "DESeq2", "DT", "GO_db", "GOstats", "GenomicRanges", "IRanges", "NMF", "S4Vectors", "SummarizedExperiment", "base64enc", "biomaRt", "genefilter", "ggplot2", "ggrepel", "heatmaply", "knitr", "limma", "pheatmap", "plotly", "plyr", "rmarkdown", "scales", "shiny", "shinyAce", "shinyBS", "shinydashboard", "threejs", "tidyr", "topGO"]
|
|
},
|
|
"pcaMethods": {
|
|
"name": "pcaMethods",
|
|
"version": "1.96.0",
|
|
"sha256": "1hrq0xmpr1l95hyi6ls9r86ahwf2rcbvr8m7cpg6ra0gsfyn4mpi",
|
|
"depends": ["Biobase", "BiocGenerics", "MASS", "Rcpp"]
|
|
},
|
|
"pcxn": {
|
|
"name": "pcxn",
|
|
"version": "2.26.0",
|
|
"sha256": "13gahdsvz7ss3chcvqmdyrnw31rcgiplqg7awrn930drwljlimqk",
|
|
"depends": ["pcxnData", "pheatmap"]
|
|
},
|
|
"pdInfoBuilder": {
|
|
"name": "pdInfoBuilder",
|
|
"version": "1.68.0",
|
|
"sha256": "1dcd0lscvywy5y5xfhfmn39n2iypjr4fjldfgmx8qa80b1d0xcbi",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "DBI", "IRanges", "RSQLite", "S4Vectors", "affxparser", "oligo", "oligoClasses"]
|
|
},
|
|
"peakPantheR": {
|
|
"name": "peakPantheR",
|
|
"version": "1.18.0",
|
|
"sha256": "0rr8kmk6d4m7aipmz2pi2rzwxhxc600bk9r24fdgsw4kbh17fman",
|
|
"depends": ["DT", "MSnbase", "XML", "bslib", "doParallel", "foreach", "ggplot2", "gridExtra", "lubridate", "minpack_lm", "mzR", "pracma", "scales", "shiny", "shinycssloaders", "stringr", "svglite"]
|
|
},
|
|
"peco": {
|
|
"name": "peco",
|
|
"version": "1.16.0",
|
|
"sha256": "1w3yf77lk5whdhicq6rzp61cpivvkc0jj5wsasjxaqvl7lf1k6fs",
|
|
"depends": ["SingleCellExperiment", "SummarizedExperiment", "assertthat", "circular", "conicfit", "doParallel", "foreach", "genlasso", "scater"]
|
|
},
|
|
"pengls": {
|
|
"name": "pengls",
|
|
"version": "1.10.0",
|
|
"sha256": "0i3v91a3y5gyns5pnjnx7kmfwbp66kllj4gynzfjlgpf57y4qhk4",
|
|
"depends": ["BiocParallel", "glmnet", "nlme"]
|
|
},
|
|
"pepStat": {
|
|
"name": "pepStat",
|
|
"version": "1.38.0",
|
|
"sha256": "1k4nf5jlpcf7bgrv08mgd575gkp08sw9w7nzab7idizdz4pvqvj4",
|
|
"depends": ["Biobase", "GenomicRanges", "IRanges", "data_table", "fields", "ggplot2", "limma", "plyr"]
|
|
},
|
|
"pepXMLTab": {
|
|
"name": "pepXMLTab",
|
|
"version": "1.38.0",
|
|
"sha256": "1y4c4cfc8s87rdmr2z2n3p3k6mann9ywragdl0v4rizss5rj35dl",
|
|
"depends": ["XML"]
|
|
},
|
|
"periodicDNA": {
|
|
"name": "periodicDNA",
|
|
"version": "1.14.0",
|
|
"sha256": "1fx7kvgl9znzpz6i33zl6019m0r4jcwsvsycjwhqaz8g3b5k4z8q",
|
|
"depends": ["BSgenome", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "cowplot", "ggplot2", "magrittr", "rtracklayer", "zoo"]
|
|
},
|
|
"pfamAnalyzeR": {
|
|
"name": "pfamAnalyzeR",
|
|
"version": "1.4.0",
|
|
"sha256": "06bp5nghgrj8qyzqp1v869vck1j10093r9dp67w0kav4x4srkyyl",
|
|
"depends": ["dplyr", "magrittr", "readr", "stringr", "tibble"]
|
|
},
|
|
"pgca": {
|
|
"name": "pgca",
|
|
"version": "1.28.0",
|
|
"sha256": "0yj7vcx3qyy3296k1lzi3qfgwcf0h08x784ygh5wkfa4y23azj0b",
|
|
"depends": []
|
|
},
|
|
"pgxRpi": {
|
|
"name": "pgxRpi",
|
|
"version": "1.0.3",
|
|
"sha256": "18c5xpfyqjjj5vc3nnajwq5sq1w24lqqs4ik91vjw5qg41rbspy3",
|
|
"depends": ["GenomicRanges", "S4Vectors", "SummarizedExperiment", "attempt", "circlize", "dplyr", "ggplot2", "httr", "lubridate", "parallelly", "plyr", "survival", "survminer"]
|
|
},
|
|
"phantasus": {
|
|
"name": "phantasus",
|
|
"version": "1.24.0",
|
|
"sha256": "0gw7d8n4nb3rjari1zrdqqhdz0ca0mgw40yr56r3x3gsyqpjlzxa",
|
|
"depends": ["AnnotationDbi", "Biobase", "DESeq2", "GEOquery", "Matrix", "Rook", "XML", "assertthat", "ccaPP", "config", "curl", "data_table", "edgeR", "fgsea", "fs", "ggplot2", "gtable", "htmltools", "httpuv", "httr", "jsonlite", "limma", "opencpu", "phantasusLite", "pheatmap", "protolite", "rhdf5", "rhdf5client", "scales", "stringr", "svglite", "yaml"]
|
|
},
|
|
"phantasusLite": {
|
|
"name": "phantasusLite",
|
|
"version": "1.2.0",
|
|
"sha256": "1adr0z6gg72dhcfa98b5sfs1lsyypbs882wckzjgmjv16v56na4r",
|
|
"depends": ["Biobase", "data_table", "httr", "rhdf5client", "stringr"]
|
|
},
|
|
"phenoTest": {
|
|
"name": "phenoTest",
|
|
"version": "1.52.0",
|
|
"sha256": "1l5r19gksrbqsdl9v8r2f4hrsbsxbkircbp3rxiis5x6y17ca9hy",
|
|
"depends": ["AnnotationDbi", "BMA", "Biobase", "Category", "GSEABase", "Heatplus", "Hmisc", "annotate", "biomaRt", "ellipse", "genefilter", "ggplot2", "gplots", "hgu133a_db", "hopach", "limma", "mgcv", "survival", "xtable"]
|
|
},
|
|
"phenomis": {
|
|
"name": "phenomis",
|
|
"version": "1.6.2",
|
|
"sha256": "06bwkhp503mqf8yyzqkl1sym8p6vl20sbb3ms9d5p81gnm87wg6q",
|
|
"depends": ["Biobase", "MultiAssayExperiment", "MultiDataSet", "PMCMRplus", "RColorBrewer", "SummarizedExperiment", "VennDiagram", "biodb", "biodbChebi", "data_table", "futile_logger", "ggplot2", "ggrepel", "htmlwidgets", "igraph", "limma", "plotly", "ranger", "ropls", "tibble", "tidyr"]
|
|
},
|
|
"phenopath": {
|
|
"name": "phenopath",
|
|
"version": "1.28.0",
|
|
"sha256": "073v6sxf3k10257npbmxxh6bvdjwnvk3zh1zq2yvm9jzg2n34i99",
|
|
"depends": ["Rcpp", "SummarizedExperiment", "dplyr", "ggplot2", "tibble", "tidyr"]
|
|
},
|
|
"philr": {
|
|
"name": "philr",
|
|
"version": "1.30.0",
|
|
"sha256": "1j6lq7rprvqs8azj13l9qd5xylcmqgw6687cqn0rbsdhgiaqlh5h",
|
|
"depends": ["ape", "ggplot2", "ggtree", "phangorn", "tidyr"]
|
|
},
|
|
"phosphonormalizer": {
|
|
"name": "phosphonormalizer",
|
|
"version": "1.28.0",
|
|
"sha256": "1l58dv15fffmji7yzw96gg6221b895kaxjpxphx6ixl203m5gz03",
|
|
"depends": ["matrixStats", "plyr"]
|
|
},
|
|
"phyloseq": {
|
|
"name": "phyloseq",
|
|
"version": "1.48.0",
|
|
"sha256": "0a8q4wcqcxs7933bxg9bg03ps6hnybvcpqmlpz1pjy3affzghcbi",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "ade4", "ape", "biomformat", "cluster", "data_table", "foreach", "ggplot2", "igraph", "multtest", "plyr", "reshape2", "scales", "vegan"]
|
|
},
|
|
"piano": {
|
|
"name": "piano",
|
|
"version": "2.20.0",
|
|
"sha256": "0v168wkwxzh70h2c08ad4dzlgklbgvx1fzwrzw2mqq0fyczj0diw",
|
|
"depends": ["Biobase", "BiocGenerics", "DT", "fgsea", "gplots", "htmlwidgets", "igraph", "marray", "relations", "scales", "shiny", "shinydashboard", "shinyjs", "visNetwork"]
|
|
},
|
|
"pickgene": {
|
|
"name": "pickgene",
|
|
"version": "1.76.0",
|
|
"sha256": "1a13p8n75bnz3dyxvp83vpxp23i85dq22mwn9mada9i8dixy49mc",
|
|
"depends": ["MASS"]
|
|
},
|
|
"pipeComp": {
|
|
"name": "pipeComp",
|
|
"version": "1.14.0",
|
|
"sha256": "1wq7b5f5hdxg2q6av782dm2gmzzdx58ss7ns9vizyxli3k926p5n",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "Matrix", "RColorBrewer", "Rtsne", "S4Vectors", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "aricode", "circlize", "clue", "cluster", "cowplot", "dplyr", "ggplot2", "intrinsicDimension", "knitr", "matrixStats", "randomcoloR", "reshape2", "scales", "scater", "scran", "uwot", "viridisLite"]
|
|
},
|
|
"pipeFrame": {
|
|
"name": "pipeFrame",
|
|
"version": "1.20.0",
|
|
"sha256": "12wi520dylsjmf3vzwsdqqfqgcz5g4znfs2n5sd9b4805smc8k8l",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "digest", "magrittr", "rmarkdown", "visNetwork"]
|
|
},
|
|
"planet": {
|
|
"name": "planet",
|
|
"version": "1.12.0",
|
|
"sha256": "0qfvddm5hnhplhni8xwwivc87n4gvvwxslxhrmvx10zsppn536g4",
|
|
"depends": ["dplyr", "magrittr", "tibble"]
|
|
},
|
|
"planttfhunter": {
|
|
"name": "planttfhunter",
|
|
"version": "1.4.0",
|
|
"sha256": "1sz19ryxdlsm30by416bi6icnkcd5znim31x9w7f4x762fv6ffvp",
|
|
"depends": ["Biostrings", "SummarizedExperiment"]
|
|
},
|
|
"plasmut": {
|
|
"name": "plasmut",
|
|
"version": "1.2.0",
|
|
"sha256": "0k8mjvs8vwgx98m19zk2ckyz5maf72px68kr0wniclmkapls3l0a",
|
|
"depends": ["dplyr", "tibble"]
|
|
},
|
|
"plgem": {
|
|
"name": "plgem",
|
|
"version": "1.76.0",
|
|
"sha256": "0my4jpxw3xy9n40cqvdaz6ay7gpwshn2iqxr43knrk0ckpyxx2cr",
|
|
"depends": ["Biobase", "MASS"]
|
|
},
|
|
"plier": {
|
|
"name": "plier",
|
|
"version": "1.74.0",
|
|
"sha256": "0svk8p4h212l3igfmrxhqi90xz74jicr5y780556k9bcj3jwqg5c",
|
|
"depends": ["Biobase", "affy"]
|
|
},
|
|
"plotGrouper": {
|
|
"name": "plotGrouper",
|
|
"version": "1.22.0",
|
|
"sha256": "169786jrqbcf8qhysar22cb5am2zh6j7w601k9784b4ywhxh3ac0",
|
|
"depends": ["Hmisc", "colourpicker", "dplyr", "egg", "ggplot2", "ggpubr", "gridExtra", "gtable", "magrittr", "readr", "readxl", "rlang", "scales", "shiny", "shinythemes", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"plotgardener": {
|
|
"name": "plotgardener",
|
|
"version": "1.10.2",
|
|
"sha256": "115j3fh9abdrlgf2dsd9jx4lja1pjfg0fh0if3vwg1gfv7qnzfrn",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "Rcpp", "curl", "data_table", "dplyr", "ggplotify", "plyranges", "purrr", "rlang", "strawr", "withr"]
|
|
},
|
|
"plyinteractions": {
|
|
"name": "plyinteractions",
|
|
"version": "1.2.0",
|
|
"sha256": "095sb616r5xwcbqsgw4b7kiywl6lbwp6rbs80qymglpqkbywwp7j",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "S4Vectors", "dplyr", "plyranges", "rlang", "tibble", "tidyselect"]
|
|
},
|
|
"plyranges": {
|
|
"name": "plyranges",
|
|
"version": "1.24.0",
|
|
"sha256": "0rh5l6bd80nhffqpnnc2c00mvp8p32ykld05h94c3y8c9mvmsl58",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "dplyr", "magrittr", "rlang", "rtracklayer", "tidyselect"]
|
|
},
|
|
"pmm": {
|
|
"name": "pmm",
|
|
"version": "1.36.0",
|
|
"sha256": "1qsv7mrz1w5msxkiqp1rvxy5cgfjkwm432c12rr3gm4z3jy1ma5h",
|
|
"depends": ["lme4"]
|
|
},
|
|
"pmp": {
|
|
"name": "pmp",
|
|
"version": "1.16.0",
|
|
"sha256": "0ryjv1g63nzipym1ijln6nv2w5flv15030b9jp09ddi5p3hn5h1j",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "ggplot2", "impute", "matrixStats", "missForest", "pcaMethods", "reshape2"]
|
|
},
|
|
"podkat": {
|
|
"name": "podkat",
|
|
"version": "1.36.0",
|
|
"sha256": "0bjan7w0mxylabvaf3c2nqv5yifddslhd4dh360il193qs07g72c",
|
|
"depends": ["BSgenome", "Biobase", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Matrix", "Rcpp", "Rhtslib", "Rsamtools"]
|
|
},
|
|
"pogos": {
|
|
"name": "pogos",
|
|
"version": "1.24.0",
|
|
"sha256": "1i5cmz5icgmd2xd9r19i6xr9v4nydqpydbf84c8ann07p0qyg5b3",
|
|
"depends": ["S4Vectors", "ggplot2", "httr", "ontoProc", "rjson", "shiny"]
|
|
},
|
|
"polyester": {
|
|
"name": "polyester",
|
|
"version": "1.39.0",
|
|
"sha256": "0fw0qhmbygjq4ryspyqikb8rxfn33ks000j7sshgfg8hf2rmqg3x",
|
|
"depends": ["Biostrings", "IRanges", "S4Vectors", "limma", "logspline", "zlibbioc"]
|
|
},
|
|
"powerTCR": {
|
|
"name": "powerTCR",
|
|
"version": "1.24.0",
|
|
"sha256": "04w6jhpc1vkqrm3dr5igp1iwkammmi53mqafjz694n379hamxrhg",
|
|
"depends": ["VGAM", "cubature", "doParallel", "evmix", "foreach", "magrittr", "purrr", "truncdist", "vegan"]
|
|
},
|
|
"ppcseq": {
|
|
"name": "ppcseq",
|
|
"version": "1.12.0",
|
|
"sha256": "0b8s29zhw3s3nbxf57fa9cixfdwx0q4d3g4b6bi35fsr0r90a44q",
|
|
"depends": ["BH", "Rcpp", "RcppEigen", "RcppParallel", "StanHeaders", "benchmarkme", "dplyr", "edgeR", "foreach", "ggplot2", "lifecycle", "magrittr", "purrr", "rlang", "rstan", "rstantools", "tibble", "tidybayes", "tidyr"]
|
|
},
|
|
"pqsfinder": {
|
|
"name": "pqsfinder",
|
|
"version": "2.20.0",
|
|
"sha256": "0v2skn7c1vy7s8hbl92v9mq3ckp3xnyq0ijvmihzm5z8yz9bclx6",
|
|
"depends": ["BH", "Biostrings", "GenomicRanges", "IRanges", "Rcpp", "S4Vectors"]
|
|
},
|
|
"pram": {
|
|
"name": "pram",
|
|
"version": "1.20.0",
|
|
"sha256": "0cc74whwnjgf8svfps2i0c9n243rzq15ffdwdwdd986mwn6v5kvv",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "data_table", "rtracklayer"]
|
|
},
|
|
"prebs": {
|
|
"name": "prebs",
|
|
"version": "1.44.0",
|
|
"sha256": "0mzy2w5jq08370nl53ms2xadr46lc0hvlgv2kkw5ikjf58rsfgx7",
|
|
"depends": ["Biobase", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "RPA", "S4Vectors", "affy"]
|
|
},
|
|
"preciseTAD": {
|
|
"name": "preciseTAD",
|
|
"version": "1.14.0",
|
|
"sha256": "0gxq07q8nv2h0j20vsjgbah8121l79sxjhjg9rf79r73pmm1733f",
|
|
"depends": ["GenomicRanges", "IRanges", "ModelMetrics", "PRROC", "S4Vectors", "caret", "cluster", "dbscan", "doSNOW", "e1071", "foreach", "gtools", "pROC", "pbapply", "rCGH", "randomForest"]
|
|
},
|
|
"preprocessCore": {
|
|
"name": "preprocessCore",
|
|
"version": "1.66.0",
|
|
"sha256": "1cd91iakbpf2hjysc44sqqrah63cgq4fz3n8j81virfwl3ir95xm",
|
|
"depends": []
|
|
},
|
|
"primirTSS": {
|
|
"name": "primirTSS",
|
|
"version": "1.22.0",
|
|
"sha256": "1c932ynp5rsymz6z7m9v38fwm30gja7z60yq3xjwj6gxw1rf7sy5",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg38", "BiocGenerics", "Biostrings", "GenomicRanges", "GenomicScores", "Gviz", "IRanges", "JASPAR2018", "R_utils", "S4Vectors", "TFBSTools", "dplyr", "phastCons100way_UCSC_hg38", "purrr", "rtracklayer", "shiny", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"proActiv": {
|
|
"name": "proActiv",
|
|
"version": "1.14.0",
|
|
"sha256": "1x70jjym4220vkwzhr2cn4hjxvxdh2mhwfyd8rp3wp6gh7d9q87a",
|
|
"depends": ["AnnotationDbi", "BiocParallel", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "data_table", "dplyr", "ggplot2", "gplots", "rlang", "scales", "tibble", "txdbmaker"]
|
|
},
|
|
"proBAMr": {
|
|
"name": "proBAMr",
|
|
"version": "1.38.0",
|
|
"sha256": "183wf1045s9ckkcwns33ps237cdip67kv9csx499h2aghhwwvf3y",
|
|
"depends": ["AnnotationDbi", "Biostrings", "GenomicFeatures", "GenomicRanges", "IRanges", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"proDA": {
|
|
"name": "proDA",
|
|
"version": "1.18.0",
|
|
"sha256": "1h3695q4al7pr3q1vj1qfiig6c5lhljxlvxpfbv6k0h987ha1fiw",
|
|
"depends": ["BiocGenerics", "S4Vectors", "SummarizedExperiment", "extraDistr"]
|
|
},
|
|
"procoil": {
|
|
"name": "procoil",
|
|
"version": "2.32.0",
|
|
"sha256": "02p8dy3gi86zp5z842sjx3rcy8a7kvji8mg4xw5krzz4pkzjjk8y",
|
|
"depends": ["Biostrings", "S4Vectors", "kebabs"]
|
|
},
|
|
"profileScoreDist": {
|
|
"name": "profileScoreDist",
|
|
"version": "1.32.0",
|
|
"sha256": "0sf2k2iccvfidy0sf2p4xi3bp5gd67izbr2075w302d8085rw1i7",
|
|
"depends": ["BiocGenerics", "Rcpp"]
|
|
},
|
|
"profileplyr": {
|
|
"name": "profileplyr",
|
|
"version": "1.20.0",
|
|
"sha256": "1gpjmkn1s509smaal15rg3629y69vnxifhyfd8xa65x7m9v1fvbc",
|
|
"depends": ["BiocGenerics", "BiocParallel", "ChIPseeker", "ComplexHeatmap", "EnrichedHeatmap", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "R_utils", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "TxDb_Mmusculus_UCSC_mm10_knownGene", "TxDb_Mmusculus_UCSC_mm9_knownGene", "circlize", "dplyr", "ggplot2", "magrittr", "org_Hs_eg_db", "org_Mm_eg_db", "pheatmap", "rGREAT", "rjson", "rlang", "rtracklayer", "soGGi", "tidyr", "tiff"]
|
|
},
|
|
"progeny": {
|
|
"name": "progeny",
|
|
"version": "1.26.0",
|
|
"sha256": "1f5y1sza9vm7wqd4mp5g7sypc9kbf9zpl015rbl41wz4y3ai21sb",
|
|
"depends": ["Biobase", "decoupleR", "dplyr", "ggplot2", "ggrepel", "gridExtra", "reshape2", "tidyr"]
|
|
},
|
|
"projectR": {
|
|
"name": "projectR",
|
|
"version": "1.20.0",
|
|
"sha256": "1c9v4iw8s4hm7wjdv3ir6df0yskz95b0wnpljiph4zv4h22q32ac",
|
|
"depends": ["Matrix", "MatrixModels", "NMF", "RColorBrewer", "ROCR", "cluster", "cowplot", "dplyr", "fgsea", "ggalluvial", "ggplot2", "ggrepel", "limma", "msigdbr", "reshape2", "scales", "tsne", "umap", "viridis"]
|
|
},
|
|
"protGear": {
|
|
"name": "protGear",
|
|
"version": "1.8.0",
|
|
"sha256": "1wbdp7f55lbn0gcxgnp9xk0y5npn7jmk9vp7yq9v76j7f396vj2f",
|
|
"depends": ["Biobase", "FactoMineR", "GGally", "Kendall", "MASS", "data_table", "dplyr", "factoextra", "flexdashboard", "genefilter", "ggplot2", "ggpubr", "gtools", "htmltools", "knitr", "limma", "magrittr", "pheatmap", "plotly", "plyr", "purrr", "readr", "remotes", "rlang", "rmarkdown", "shiny", "shinydashboard", "styler", "tibble", "tidyr", "vsn"]
|
|
},
|
|
"proteinProfiles": {
|
|
"name": "proteinProfiles",
|
|
"version": "1.44.0",
|
|
"sha256": "1dmy2cmjxclnml8bci6ihw5ak4ibgah4r17yzy9ypas0y457ff5c",
|
|
"depends": []
|
|
},
|
|
"psichomics": {
|
|
"name": "psichomics",
|
|
"version": "1.30.0",
|
|
"sha256": "0nwfaw1a4mxdzqk0zqadxispdasx75nlb19zla753nmydxlpavj0",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocFileCache", "DT", "R_utils", "Rcpp", "Rfast", "SummarizedExperiment", "XML", "cluster", "colourpicker", "data_table", "digest", "dplyr", "edgeR", "fastICA", "fastmatch", "ggplot2", "ggrepel", "highcharter", "htmltools", "httr", "jsonlite", "limma", "pairsD3", "plyr", "purrr", "recount", "reshape2", "shiny", "shinyBS", "shinyjs", "stringr", "survival", "xtable"]
|
|
},
|
|
"psygenet2r": {
|
|
"name": "psygenet2r",
|
|
"version": "1.36.0",
|
|
"sha256": "1khjid5lkkn5qpnk9adw1in4km41q067mj5r5yqs2iz5hv4vx6xv",
|
|
"depends": ["BgeeDB", "Biobase", "GO_db", "RCurl", "biomaRt", "ggplot2", "igraph", "labeling", "reshape2", "stringr", "topGO"]
|
|
},
|
|
"ptairMS": {
|
|
"name": "ptairMS",
|
|
"version": "1.12.0",
|
|
"sha256": "0r0h4mdvhbrr3j78qzdcfw7q5q492wx9v78rg2xzw59ynqbyv3gg",
|
|
"depends": ["Biobase", "DT", "Hmisc", "MSnbase", "Rcpp", "bit64", "chron", "data_table", "doParallel", "enviPat", "foreach", "ggplot2", "ggpubr", "gridExtra", "minpack_lm", "plotly", "rhdf5", "rlang", "scales", "shiny", "shinyscreenshot", "signal"]
|
|
},
|
|
"puma": {
|
|
"name": "puma",
|
|
"version": "3.46.0",
|
|
"sha256": "1l6xvj6l9f5kmff3a5q7vzf2sssyhkqpa4im46g53jhkindbqwg6",
|
|
"depends": ["Biobase", "affy", "affyio", "mclust", "oligo", "oligoClasses"]
|
|
},
|
|
"pvac": {
|
|
"name": "pvac",
|
|
"version": "1.52.0",
|
|
"sha256": "132hvlnp3cfxazvf0wq1q5v00q5x79fg60r7vsx07wi1vkjba3wg",
|
|
"depends": ["Biobase", "affy"]
|
|
},
|
|
"pvca": {
|
|
"name": "pvca",
|
|
"version": "1.44.0",
|
|
"sha256": "0bk1nrjhn78wcbcawz8bx2lm3y45mhfv22yrrlxrz91sah9jjw27",
|
|
"depends": ["Biobase", "Matrix", "lme4", "vsn"]
|
|
},
|
|
"pwOmics": {
|
|
"name": "pwOmics",
|
|
"version": "1.36.0",
|
|
"sha256": "00c198vm7zzsq2a43c6iar5937556s65183wk1k7wy1zl8vqi8vg",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "Biobase", "BiocGenerics", "GenomicRanges", "STRINGdb", "biomaRt", "data_table", "gplots", "graph", "igraph", "rBiopaxParser"]
|
|
},
|
|
"pwalign": {
|
|
"name": "pwalign",
|
|
"version": "1.0.0",
|
|
"sha256": "1m0j1m5jif5spd9fkpzz3z3c9s8vwiy8xvpx8rz8igxj89rwrwb7",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "S4Vectors", "XVector"]
|
|
},
|
|
"qPLEXanalyzer": {
|
|
"name": "qPLEXanalyzer",
|
|
"version": "1.22.0",
|
|
"sha256": "15cmfrp1hilqqkkxphd4lbqmk4mgv3s8ky76bnidfv58qc5pa940",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "IRanges", "MSnbase", "RColorBrewer", "assertthat", "dplyr", "ggdendro", "ggplot2", "limma", "magrittr", "preprocessCore", "purrr", "readr", "rlang", "scales", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"qckitfastq": {
|
|
"name": "qckitfastq",
|
|
"version": "1.20.0",
|
|
"sha256": "0wb6r4mdh3zf3hic88cn9s22s0dn7h65gl4djwrcl5sm5b1a6sxm",
|
|
"depends": ["RSeqAn", "Rcpp", "data_table", "dplyr", "ggplot2", "magrittr", "reshape2", "rlang", "seqTools", "zlibbioc"]
|
|
},
|
|
"qcmetrics": {
|
|
"name": "qcmetrics",
|
|
"version": "1.42.0",
|
|
"sha256": "0r7c67bjf9j7r9yciljx2sgnarrjaf1gazf6n8rjjar2jfmrsmrm",
|
|
"depends": ["Biobase", "S4Vectors", "knitr", "pander", "xtable"]
|
|
},
|
|
"qmtools": {
|
|
"name": "qmtools",
|
|
"version": "1.8.0",
|
|
"sha256": "1w0kd1kawf0w4rmlz8pfnabagrjvnyql2bcs2f7nl7sp6q7sfvni",
|
|
"depends": ["MsCoreUtils", "SummarizedExperiment", "VIM", "ggplot2", "heatmaply", "igraph", "limma", "patchwork", "rlang", "scales"]
|
|
},
|
|
"qpcrNorm": {
|
|
"name": "qpcrNorm",
|
|
"version": "1.62.0",
|
|
"sha256": "1rcs9p5y50ynwmpxqwhigh9qxgs54shrglzjnakq08j24hxkyd2h",
|
|
"depends": ["Biobase", "affy", "limma"]
|
|
},
|
|
"qpgraph": {
|
|
"name": "qpgraph",
|
|
"version": "2.38.0",
|
|
"sha256": "040haanlhmd11isghcrdidf2nal4195kskp0q8965x41fbdvsx37",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocParallel", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "Rgraphviz", "S4Vectors", "annotate", "graph", "mvtnorm", "qtl"]
|
|
},
|
|
"qsea": {
|
|
"name": "qsea",
|
|
"version": "1.30.0",
|
|
"sha256": "141fi7zk9czr4j1d0y1hk1hz33nq3k79cdkawp0x92nvja1n9njd",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "HMMcopy", "IRanges", "Rsamtools", "S4Vectors", "gtools", "limma", "rtracklayer", "zoo"]
|
|
},
|
|
"qsmooth": {
|
|
"name": "qsmooth",
|
|
"version": "1.20.0",
|
|
"sha256": "16c7xjmgrqcklpirnwlqg92v4lj7f599ddl1w36xs8fmq7svz1lj",
|
|
"depends": ["Hmisc", "SummarizedExperiment", "sva"]
|
|
},
|
|
"qsvaR": {
|
|
"name": "qsvaR",
|
|
"version": "1.8.0",
|
|
"sha256": "1ijmh0mby6j50icwlcfhn416x0cjj5y0v3qqjmcn4hx6395m90ma",
|
|
"depends": ["SummarizedExperiment", "ggplot2", "sva"]
|
|
},
|
|
"quantiseqr": {
|
|
"name": "quantiseqr",
|
|
"version": "1.12.0",
|
|
"sha256": "0d1afsz7hv4ixpicskzw564cq593jcfkix7rryq5lbj27rz5da3c",
|
|
"depends": ["Biobase", "MASS", "SummarizedExperiment", "ggplot2", "limSolve", "preprocessCore", "rlang", "tidyr"]
|
|
},
|
|
"quantro": {
|
|
"name": "quantro",
|
|
"version": "1.38.0",
|
|
"sha256": "0b8afvnczkhmbdg5zna2h5v42zdyvk1zybn9cwcbw22rijiysq99",
|
|
"depends": ["Biobase", "RColorBrewer", "doParallel", "foreach", "ggplot2", "iterators", "minfi"]
|
|
},
|
|
"quantsmooth": {
|
|
"name": "quantsmooth",
|
|
"version": "1.70.0",
|
|
"sha256": "1mgdrhq0j4b29l3y49h00ccwkz6vhs6hjb1236blmlzdf590q7gc",
|
|
"depends": ["quantreg"]
|
|
},
|
|
"qusage": {
|
|
"name": "qusage",
|
|
"version": "2.38.0",
|
|
"sha256": "06hj1nvp5j4zdqj9v0gc42fd3403phb4gibra4fc1sxzrhi9nq92",
|
|
"depends": ["Biobase", "emmeans", "fftw", "limma", "nlme"]
|
|
},
|
|
"qvalue": {
|
|
"name": "qvalue",
|
|
"version": "2.36.0",
|
|
"sha256": "1hgkrvbs1rf8db105ik9ar54zdx49v25hn71jgw7j5r43zngfg2a",
|
|
"depends": ["ggplot2", "reshape2"]
|
|
},
|
|
"r3Cseq": {
|
|
"name": "r3Cseq",
|
|
"version": "1.50.0",
|
|
"sha256": "02dc6milwymwj90x24fip8av84ik9dp69sg9g7l300kwyk0hcrb7",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "VGAM", "data_table", "qvalue", "rtracklayer", "sqldf"]
|
|
},
|
|
"rBLAST": {
|
|
"name": "rBLAST",
|
|
"version": "1.0.0",
|
|
"sha256": "1yhj08p6iyz2760j2z3v78mc4rzafd0lzfqprq3wd1v1bm34v3qb",
|
|
"depends": ["BiocFileCache", "Biostrings"]
|
|
},
|
|
"rBiopaxParser": {
|
|
"name": "rBiopaxParser",
|
|
"version": "2.44.0",
|
|
"sha256": "0hzs6i7l8n1hifj3b91n1f6z3l40jdcl1jlnz8z5qczk84266lx2",
|
|
"depends": ["XML", "data_table"]
|
|
},
|
|
"rCGH": {
|
|
"name": "rCGH",
|
|
"version": "1.34.0",
|
|
"sha256": "0241nrg1kcc6vxj1p6pp5gyjff7k3mdsr764bn3zxvh1wqjnvfrm",
|
|
"depends": ["AnnotationDbi", "DNAcopy", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "TxDb_Hsapiens_UCSC_hg18_knownGene", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "aCGH", "affy", "ggplot2", "lattice", "limma", "mclust", "org_Hs_eg_db", "plyr", "shiny"]
|
|
},
|
|
"rDGIdb": {
|
|
"name": "rDGIdb",
|
|
"version": "1.30.0",
|
|
"sha256": "1v96nj1ffmg1678p7rspcqsnqvwcssv96jcyqqbb8v8sryflwmi5",
|
|
"depends": ["httr", "jsonlite"]
|
|
},
|
|
"rGADEM": {
|
|
"name": "rGADEM",
|
|
"version": "2.52.0",
|
|
"sha256": "1d1vfnxj1p4y1074ybmkxv4x3v0i3sn5w3k4bddzlrqbzyb9kkna",
|
|
"depends": ["BSgenome", "Biostrings", "GenomicRanges", "IRanges", "seqLogo"]
|
|
},
|
|
"rGREAT": {
|
|
"name": "rGREAT",
|
|
"version": "2.6.0",
|
|
"sha256": "0sszyfnnzzn5xhs39zgkzr7f3da820nxr6qaw68wknblgmyyddi8",
|
|
"depends": ["AnnotationDbi", "DT", "GO_db", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "GetoptLong", "GlobalOptions", "IRanges", "RColorBrewer", "RCurl", "Rcpp", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "circlize", "digest", "doParallel", "foreach", "org_Hs_eg_db", "progress", "rjson", "shiny"]
|
|
},
|
|
"rGenomeTracks": {
|
|
"name": "rGenomeTracks",
|
|
"version": "1.10.0",
|
|
"sha256": "0a34xdmpj1872vxhd9a2k1rbzgvsmhisyy2pknbz606924k13xnz",
|
|
"depends": ["imager", "rGenomeTracksData", "reticulate"]
|
|
},
|
|
"rRDP": {
|
|
"name": "rRDP",
|
|
"version": "1.38.0",
|
|
"sha256": "00r8cii5gnnzd909alq7cn94b3df66w6bcd7pld1jvdphxwgvp3l",
|
|
"depends": ["Biostrings", "rJava"]
|
|
},
|
|
"rSWeeP": {
|
|
"name": "rSWeeP",
|
|
"version": "1.16.0",
|
|
"sha256": "0l9qpmbgq7pp0g3m2df881zif42d6dbbgkiri97zklndgyi035jp",
|
|
"depends": ["pracma"]
|
|
},
|
|
"rScudo": {
|
|
"name": "rScudo",
|
|
"version": "1.20.0",
|
|
"sha256": "0mhhv5p1z334qn92bql4rsd8p0xpnhd26kzahwi4wqkkb6yqbn8y",
|
|
"depends": ["Biobase", "BiocGenerics", "S4Vectors", "SummarizedExperiment", "igraph", "stringr"]
|
|
},
|
|
"rTRM": {
|
|
"name": "rTRM",
|
|
"version": "1.42.0",
|
|
"sha256": "016vhij3rc6sbhi7caxxnpps4w0w2n28x4hqwdxkxk6r0f6kkvla",
|
|
"depends": ["AnnotationDbi", "DBI", "RSQLite", "igraph"]
|
|
},
|
|
"rTRMui": {
|
|
"name": "rTRMui",
|
|
"version": "1.42.0",
|
|
"sha256": "0d5gxjiddy57cbryjdihqyf7nkd35apk41wkl1izp467il40mb75",
|
|
"depends": ["MotifDb", "org_Hs_eg_db", "org_Mm_eg_db", "rTRM", "shiny"]
|
|
},
|
|
"rWikiPathways": {
|
|
"name": "rWikiPathways",
|
|
"version": "1.24.0",
|
|
"sha256": "1m6djs70h58xs4323vp65j33i8mzql2sps9l04pgp28cs17yr4mc",
|
|
"depends": ["RCurl", "XML", "data_table", "dplyr", "httr", "lubridate", "purrr", "readr", "rjson", "stringr", "tidyr"]
|
|
},
|
|
"raer": {
|
|
"name": "raer",
|
|
"version": "1.2.0",
|
|
"sha256": "0fxc1i3p1ha0yn6s5c334q2bv7mfwjd3yvlvss6whi16vi63kbwj",
|
|
"depends": ["BSgenome", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "Rhtslib", "Rsamtools", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cli", "rtracklayer"]
|
|
},
|
|
"rain": {
|
|
"name": "rain",
|
|
"version": "1.38.0",
|
|
"sha256": "0wah5qiciwfcvdrii885dvsgbmq7lnjdpgdvzddprf6jwdsgq8w0",
|
|
"depends": ["gmp", "multtest"]
|
|
},
|
|
"ramr": {
|
|
"name": "ramr",
|
|
"version": "1.12.0",
|
|
"sha256": "096rxydr9qilg4lcczab1xlzv5ff2lq9r5l6bdzyhprm07mglc80",
|
|
"depends": ["BiocGenerics", "EnvStats", "ExtDist", "GenomicRanges", "IRanges", "S4Vectors", "doParallel", "doRNG", "foreach", "ggplot2", "matrixStats", "reshape2"]
|
|
},
|
|
"ramwas": {
|
|
"name": "ramwas",
|
|
"version": "1.28.0",
|
|
"sha256": "0azf24qvjy2dfizi0wp7lkrhjdm2xwwk6hmkg31ly501cjd4pn9s",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicAlignments", "KernSmooth", "Rsamtools", "biomaRt", "digest", "filematrix", "glmnet"]
|
|
},
|
|
"randPack": {
|
|
"name": "randPack",
|
|
"version": "1.50.0",
|
|
"sha256": "0byix4ipmd9wnknbzm4pjqp09yh9fa4cjky94p3l1gnbmg8kw48j",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"randRotation": {
|
|
"name": "randRotation",
|
|
"version": "1.16.0",
|
|
"sha256": "1wi9i8ssan3pfjikbjj5m3rs8lv52jdih0pxfk0rzahqak8m82db",
|
|
"depends": ["Rdpack"]
|
|
},
|
|
"rawDiag": {
|
|
"name": "rawDiag",
|
|
"version": "1.0.0",
|
|
"sha256": "1rdccg67gkcxj7jgg0by1244x3794kz4s60l5ps54j41iy3zs0v2",
|
|
"depends": ["BiocManager", "BiocParallel", "dplyr", "ggplot2", "hexbin", "htmltools", "rawrr", "reshape2", "rlang", "scales", "shiny"]
|
|
},
|
|
"rawrr": {
|
|
"name": "rawrr",
|
|
"version": "1.12.0",
|
|
"sha256": "1h8q9j8qiqrmk41j567dq53i1mbm89c9gcj9p8qjqcrjcvykg89f",
|
|
"depends": []
|
|
},
|
|
"rbsurv": {
|
|
"name": "rbsurv",
|
|
"version": "2.62.0",
|
|
"sha256": "1hj569n72bds094dfnr8bpfx1ca0sn4bax8lnjz03yz08kmrv8a6",
|
|
"depends": ["Biobase", "survival"]
|
|
},
|
|
"rcellminer": {
|
|
"name": "rcellminer",
|
|
"version": "2.26.0",
|
|
"sha256": "0dxg050rw9p88hdv55v60fg2ijjl1dnzxq47xy60nrzpijcb3770",
|
|
"depends": ["Biobase", "ggplot2", "gplots", "rcellminerData", "shiny", "stringr"]
|
|
},
|
|
"rebook": {
|
|
"name": "rebook",
|
|
"version": "1.14.0",
|
|
"sha256": "0v59wr8862phlv4byy3j3l0spm7450vz218xffgwlkwixzw3hnnk",
|
|
"depends": ["BiocStyle", "CodeDepends", "dir_expiry", "filelock", "knitr", "rmarkdown"]
|
|
},
|
|
"receptLoss": {
|
|
"name": "receptLoss",
|
|
"version": "1.16.0",
|
|
"sha256": "1c110rpfbi6rgl97659qx5qyj6wp6sqzddpnjg3bir21nh6902fl",
|
|
"depends": ["SummarizedExperiment", "dplyr", "ggplot2", "magrittr", "tidyr"]
|
|
},
|
|
"reconsi": {
|
|
"name": "reconsi",
|
|
"version": "1.16.0",
|
|
"sha256": "13xviw2qn8sk7ka6qskb39dsv9qz4vkfdydpzzvm14y6iy62zgzr",
|
|
"depends": ["Matrix", "ggplot2", "ks", "matrixStats", "phyloseq", "reshape2"]
|
|
},
|
|
"recount": {
|
|
"name": "recount",
|
|
"version": "1.30.2",
|
|
"sha256": "0fdnp0ilvxkzyzwblbchf6ns1v6fah32zyg3y68pz88ir5nwg49b",
|
|
"depends": ["BiocParallel", "GEOquery", "GenomeInfoDb", "GenomicRanges", "IRanges", "RCurl", "S4Vectors", "SummarizedExperiment", "derfinder", "downloader", "rentrez", "rtracklayer"]
|
|
},
|
|
"recount3": {
|
|
"name": "recount3",
|
|
"version": "1.14.0",
|
|
"sha256": "1dmc5s5mw95caq2pqpgik5z5nggy5mnas1dawssiyhr10wivnjd0",
|
|
"depends": ["BiocFileCache", "GenomicRanges", "Matrix", "R_utils", "S4Vectors", "SummarizedExperiment", "data_table", "httr", "rtracklayer", "sessioninfo"]
|
|
},
|
|
"recountmethylation": {
|
|
"name": "recountmethylation",
|
|
"version": "1.14.0",
|
|
"sha256": "0cbp1cz6h1djwgrv2achgypmxiracrjm8y8sj1f9iqy6i1fgq8jl",
|
|
"depends": ["BiocFileCache", "DelayedMatrixStats", "HDF5Array", "RCurl", "R_utils", "S4Vectors", "basilisk", "minfi", "reticulate", "rhdf5"]
|
|
},
|
|
"recoup": {
|
|
"name": "recoup",
|
|
"version": "1.32.0",
|
|
"sha256": "07313l0b78x0m0vp8ipngzv069v7vjgr8q7vv4j9kbr33kql3bp6",
|
|
"depends": ["BiocGenerics", "Biostrings", "ComplexHeatmap", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "Rsamtools", "S4Vectors", "biomaRt", "circlize", "ggplot2", "httr", "rtracklayer", "stringr", "txdbmaker"]
|
|
},
|
|
"regionReport": {
|
|
"name": "regionReport",
|
|
"version": "1.38.0",
|
|
"sha256": "1nxs0slhhnxpjg220irf0a6hsh1zp0xh54ffpvl25lzgy422xwpp",
|
|
"depends": ["BiocStyle", "DEFormats", "DESeq2", "GenomeInfoDb", "GenomicRanges", "RefManageR", "S4Vectors", "SummarizedExperiment", "derfinder", "knitr", "knitrBootstrap", "rmarkdown"]
|
|
},
|
|
"regionalpcs": {
|
|
"name": "regionalpcs",
|
|
"version": "1.2.0",
|
|
"sha256": "1hrmxb2ag0d823kn3ya07rwgfv931x2shqzdq3q310rw9jllcwgd",
|
|
"depends": ["GenomicRanges", "PCAtools", "dplyr", "tibble"]
|
|
},
|
|
"regioneR": {
|
|
"name": "regioneR",
|
|
"version": "1.36.0",
|
|
"sha256": "1ygdlqvhf165mqd247783pi1yzidqap8b913444vrs881n62xvrb",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "memoise", "rtracklayer"]
|
|
},
|
|
"regioneReloaded": {
|
|
"name": "regioneReloaded",
|
|
"version": "1.6.0",
|
|
"sha256": "1yi97sarqljayqm5lwci0z768qk0vzqiazpx8j6lvpsqhrsgmcry",
|
|
"depends": ["RColorBrewer", "Rtsne", "cluster", "ggplot2", "ggrepel", "regioneR", "reshape2", "scales", "umap"]
|
|
},
|
|
"regsplice": {
|
|
"name": "regsplice",
|
|
"version": "1.30.0",
|
|
"sha256": "0cmqigb2klpq7nqvhmvmyf9xzgjfvw22zpgpcjnlv24ga30sacak",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "edgeR", "glmnet", "limma", "pbapply"]
|
|
},
|
|
"regutools": {
|
|
"name": "regutools",
|
|
"version": "1.16.0",
|
|
"sha256": "1ypy9nrafnr7ri4a2cz5akm78cdq0qahlmbcs8ylr97bimkdandk",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocFileCache", "Biostrings", "DBI", "GenomicRanges", "Gviz", "IRanges", "RCy3", "RSQLite", "S4Vectors"]
|
|
},
|
|
"retrofit": {
|
|
"name": "retrofit",
|
|
"version": "1.4.0",
|
|
"sha256": "1dx2yfz7f18sknl75igmfzk3nfrp28pjkbkpn1w6zx1sbj6dbxsl",
|
|
"depends": ["Rcpp"]
|
|
},
|
|
"rexposome": {
|
|
"name": "rexposome",
|
|
"version": "1.26.0",
|
|
"sha256": "13ivwypcw58bmlrps16anhxf0dxk8v16wyadwz4wds4rd0ihjvcz",
|
|
"depends": ["Biobase", "FactoMineR", "Hmisc", "S4Vectors", "circlize", "corrplot", "ggplot2", "ggrepel", "ggridges", "glmnet", "gplots", "gridExtra", "gtools", "imputeLCMD", "lme4", "lsr", "mice", "pryr", "reshape2", "scales", "scatterplot3d", "stringr"]
|
|
},
|
|
"rfPred": {
|
|
"name": "rfPred",
|
|
"version": "1.42.0",
|
|
"sha256": "02clazsix7n4nnz1kn7hkk48fggxp2bqf97xbzngnljskvlhnakb",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "data_table"]
|
|
},
|
|
"rfaRm": {
|
|
"name": "rfaRm",
|
|
"version": "1.16.0",
|
|
"sha256": "1c8kpcbwkz33cbc8xqfd5cqj1n979a9ijbj06nfgylkm71ma1682",
|
|
"depends": ["Biostrings", "IRanges", "S4Vectors", "data_table", "httr", "jsonlite", "magick", "rsvg", "rvest", "stringi", "xml2"]
|
|
},
|
|
"rgoslin": {
|
|
"name": "rgoslin",
|
|
"version": "1.8.0",
|
|
"sha256": "0saxw5kppcw0hwjykgzx8873izbl509hq1ga8w9qg2c5zx5xahk9",
|
|
"depends": ["Rcpp", "dplyr"]
|
|
},
|
|
"rgsepd": {
|
|
"name": "rgsepd",
|
|
"version": "1.36.0",
|
|
"sha256": "18r2naxir299k0gcd9j3a5rvdma590m06v38j8wiligsgw5cmkfg",
|
|
"depends": ["AnnotationDbi", "DESeq2", "GO_db", "SummarizedExperiment", "biomaRt", "goseq", "gplots", "org_Hs_eg_db"]
|
|
},
|
|
"rhdf5": {
|
|
"name": "rhdf5",
|
|
"version": "2.48.0",
|
|
"sha256": "086bnwzmlwq3z9a4kb1rnzb2wnchhi4gvzpijhladgd83nqyb0wn",
|
|
"depends": ["Rhdf5lib", "rhdf5filters"]
|
|
},
|
|
"rhdf5client": {
|
|
"name": "rhdf5client",
|
|
"version": "1.26.0",
|
|
"sha256": "17c8r361za3760lkik2b88c3m8zska33qam2iwbl5hw9yhkrl6ck",
|
|
"depends": ["DelayedArray", "data_table", "httr", "rjson"]
|
|
},
|
|
"rhdf5filters": {
|
|
"name": "rhdf5filters",
|
|
"version": "1.16.0",
|
|
"sha256": "0fsfp34pfb5k030j7nfx9b9vsil02y85sv1dd1y0bfdxchi4bw8x",
|
|
"depends": ["Rhdf5lib"]
|
|
},
|
|
"riboSeqR": {
|
|
"name": "riboSeqR",
|
|
"version": "1.38.0",
|
|
"sha256": "0p0q28n8hlai80pxxns9pzzg552pbwlxlph8zjf78bwbjagrfbz5",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "abind", "baySeq", "seqLogo"]
|
|
},
|
|
"ribor": {
|
|
"name": "ribor",
|
|
"version": "1.16.0",
|
|
"sha256": "0kymbmm96a7ccl0dz46sk0lzgf3n55qvdkywkj91kh0ddrsji0vi",
|
|
"depends": ["S4Vectors", "dplyr", "ggplot2", "hash", "rhdf5", "rlang", "tidyr", "yaml"]
|
|
},
|
|
"ribosomeProfilingQC": {
|
|
"name": "ribosomeProfilingQC",
|
|
"version": "1.16.0",
|
|
"sha256": "0bblk7ncxdrbgmgcjvif9zgd1ynlh4205vlmgr42jbg5p1i7p3in",
|
|
"depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "Biostrings", "EDASeq", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "RUVSeq", "Rsamtools", "Rsubread", "S4Vectors", "XVector", "cluster", "ggExtra", "ggfittext", "ggplot2", "ggrepel", "motifStack", "rtracklayer", "scales", "txdbmaker"]
|
|
},
|
|
"rifi": {
|
|
"name": "rifi",
|
|
"version": "1.8.0",
|
|
"sha256": "0yajsqm27zy5imb719x8knsrn9rk85q98wc65xqmvj9bkqkjfvdl",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "car", "cowplot", "doMC", "dplyr", "egg", "foreach", "ggplot2", "nls2", "nnet", "reshape2", "rlang", "rtracklayer", "scales", "stringr", "tibble"]
|
|
},
|
|
"rifiComparative": {
|
|
"name": "rifiComparative",
|
|
"version": "1.4.0",
|
|
"sha256": "0isgcbmk7c99xhlasaaa2gyjf9827zfdq1vyf4xc21lyhv9q5j51",
|
|
"depends": ["DTA", "LSD", "S4Vectors", "SummarizedExperiment", "cowplot", "devtools", "doMC", "dplyr", "egg", "foreach", "ggplot2", "ggrepel", "nnet", "reshape2", "rlang", "rtracklayer", "scales", "stringr", "tibble", "writexl"]
|
|
},
|
|
"rmelting": {
|
|
"name": "rmelting",
|
|
"version": "1.20.0",
|
|
"sha256": "1rk27wg4j8hldmrzcjymw3hhaq9cm4bjz5fqwjzx8kdrs94wwrid",
|
|
"depends": ["Rdpack", "rJava"]
|
|
},
|
|
"rmspc": {
|
|
"name": "rmspc",
|
|
"version": "1.10.0",
|
|
"sha256": "0f9l8gbbd81ac871fbpknyxsjwy9l1xz3nfbvnic012gg33n6j4y",
|
|
"depends": ["BiocManager", "GenomicRanges", "processx", "rtracklayer", "stringr"]
|
|
},
|
|
"rnaEditr": {
|
|
"name": "rnaEditr",
|
|
"version": "1.14.0",
|
|
"sha256": "1jghirl1iz11wm4sq8qvw2fvgha7q6ili6bddgpdfcn07abbkcsm",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "bumphunter", "corrplot", "logistf", "plyr", "survival"]
|
|
},
|
|
"rnaseqcomp": {
|
|
"name": "rnaseqcomp",
|
|
"version": "1.34.0",
|
|
"sha256": "00lv24xxf9644gikb76wwk9bijfa3frpwb4n0cbq5fsx0b1288rs",
|
|
"depends": ["RColorBrewer"]
|
|
},
|
|
"roar": {
|
|
"name": "roar",
|
|
"version": "1.40.0",
|
|
"sha256": "06d1w5kknm2mb6v6glmyd97n1a33529kgqkkyfbk277ikn45hi9f",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "rtracklayer"]
|
|
},
|
|
"roastgsa": {
|
|
"name": "roastgsa",
|
|
"version": "1.2.0",
|
|
"sha256": "00rxmlx94y03mkz5jbwqx4px1cwv63nblhj2yxidy2k5374fk7fy",
|
|
"depends": ["Biobase", "RColorBrewer", "ggplot2", "gplots", "limma"]
|
|
},
|
|
"rols": {
|
|
"name": "rols",
|
|
"version": "3.0.0",
|
|
"sha256": "04kpfb0vavlkxirl9hgl6wdqhy6kw6ly3fyk0jr85kdzdb8ss1xd",
|
|
"depends": ["Biobase", "BiocGenerics", "httr2", "jsonlite"]
|
|
},
|
|
"ropls": {
|
|
"name": "ropls",
|
|
"version": "1.36.0",
|
|
"sha256": "0cdkwzrbr6h1dfi3qdh629hi2jlm1hxgq4dvx4z3vc2r6w0c6m11",
|
|
"depends": ["Biobase", "MultiAssayExperiment", "MultiDataSet", "SummarizedExperiment", "ggplot2", "plotly"]
|
|
},
|
|
"rprimer": {
|
|
"name": "rprimer",
|
|
"version": "1.8.0",
|
|
"sha256": "04maldspcfzszvbgvzq4fmaf62639kb2rs2dqm9r9miqqxqndkr3",
|
|
"depends": ["Biostrings", "DT", "IRanges", "S4Vectors", "bslib", "ggplot2", "mathjaxr", "patchwork", "reshape2", "shiny", "shinyFeedback", "shinycssloaders"]
|
|
},
|
|
"rpx": {
|
|
"name": "rpx",
|
|
"version": "2.12.0",
|
|
"sha256": "1a3rh2f9wwgcgadgb5ryj8vs9kcyhqwz7wdnykv2pl3pgm8ba2zp",
|
|
"depends": ["BiocFileCache", "RCurl", "curl", "jsonlite", "xml2"]
|
|
},
|
|
"rqubic": {
|
|
"name": "rqubic",
|
|
"version": "1.50.0",
|
|
"sha256": "1hr0i7f8987x79ir34yg65bzkd7lij03rkfmw6dr289d8kjclap2",
|
|
"depends": ["Biobase", "BiocGenerics", "biclust"]
|
|
},
|
|
"rrvgo": {
|
|
"name": "rrvgo",
|
|
"version": "1.16.0",
|
|
"sha256": "1339cxx5sizbdhhya1kxq9x31m2qvdl993abr4pn07hs3awya63p",
|
|
"depends": ["AnnotationDbi", "GOSemSim", "GO_db", "ggplot2", "ggrepel", "pheatmap", "shiny", "tm", "treemap", "umap", "wordcloud"]
|
|
},
|
|
"rsbml": {
|
|
"name": "rsbml",
|
|
"version": "2.62.0",
|
|
"sha256": "02pmxg0ppy1asjscp13kmqyj2phw4q138fj2b3xgmcagwxqzb4bs",
|
|
"depends": ["BiocGenerics", "graph"]
|
|
},
|
|
"rsemmed": {
|
|
"name": "rsemmed",
|
|
"version": "1.14.0",
|
|
"sha256": "12m771wipjr823k88f38waqsm1nq7qig7200969g2dz8fiaaxjxx",
|
|
"depends": ["dplyr", "igraph", "magrittr", "stringr"]
|
|
},
|
|
"rtracklayer": {
|
|
"name": "rtracklayer",
|
|
"version": "1.64.0",
|
|
"sha256": "0h2cqr1jqqqxvkmqpngfl8ppm1p65vvlb1wgfwl9r4f99b8vz33g",
|
|
"depends": ["BiocGenerics", "BiocIO", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "XML", "XVector", "curl", "httr", "restfulr", "zlibbioc"]
|
|
},
|
|
"runibic": {
|
|
"name": "runibic",
|
|
"version": "1.26.0",
|
|
"sha256": "0q25b2dfgp82p156l37zzl5a842ah3hzq60f9gkcv4vqkns99z64",
|
|
"depends": ["Rcpp", "SummarizedExperiment", "biclust", "testthat"]
|
|
},
|
|
"sRACIPE": {
|
|
"name": "sRACIPE",
|
|
"version": "1.20.0",
|
|
"sha256": "0kkfci9mifhb905c88cyfvwy6yacb1ar0ai6lcxhyx60bwnv6x7i",
|
|
"depends": ["BiocGenerics", "MASS", "RColorBrewer", "Rcpp", "S4Vectors", "SummarizedExperiment", "ggplot2", "gplots", "gridExtra", "htmlwidgets", "reshape2", "umap", "visNetwork"]
|
|
},
|
|
"sSNAPPY": {
|
|
"name": "sSNAPPY",
|
|
"version": "1.8.0",
|
|
"sha256": "0ij3f7xax92jihzhf6axx7sq36jcnvyjfhgan1m1mcsaandb4d4k",
|
|
"depends": ["SummarizedExperiment", "dplyr", "edgeR", "ggforce", "ggplot2", "ggraph", "graphite", "gtools", "igraph", "magrittr", "org_Hs_eg_db", "pheatmap", "reshape2", "rlang", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"sSeq": {
|
|
"name": "sSeq",
|
|
"version": "1.42.0",
|
|
"sha256": "08wjz54qsgdwbf3rscb8mzqx2ffm62dm589zj4hflb1ayhgza2ai",
|
|
"depends": ["RColorBrewer", "caTools"]
|
|
},
|
|
"safe": {
|
|
"name": "safe",
|
|
"version": "3.44.0",
|
|
"sha256": "1kxl9rqqpnihz5rhgv07q0vgqxpams4iyf2w11ffv59b2gi1brrr",
|
|
"depends": ["AnnotationDbi", "Biobase", "SparseM"]
|
|
},
|
|
"sagenhaft": {
|
|
"name": "sagenhaft",
|
|
"version": "1.74.0",
|
|
"sha256": "1gqil6dqjrqlxnj8sfhwi2izmqcj9i6id3wfskvkn3xw12hk3cnp",
|
|
"depends": ["SparseM"]
|
|
},
|
|
"sampleClassifier": {
|
|
"name": "sampleClassifier",
|
|
"version": "1.28.0",
|
|
"sha256": "12c8di5xw7q3a78z75labq3qzwsnk7s1xr5c75xsy8k2f04npn0z",
|
|
"depends": ["MGFM", "MGFR", "annotate", "e1071", "ggplot2"]
|
|
},
|
|
"sangeranalyseR": {
|
|
"name": "sangeranalyseR",
|
|
"version": "1.14.0",
|
|
"sha256": "1l5capnvhd78lzaiv44q9qiw9vdlnygmflmrqyv3ck3qk59hwsaw",
|
|
"depends": ["BiocStyle", "Biostrings", "DECIPHER", "DT", "ape", "data_table", "excelR", "ggdendro", "gridExtra", "knitr", "logger", "openxlsx", "plotly", "pwalign", "reshape2", "rmarkdown", "sangerseqR", "seqinr", "shiny", "shinyWidgets", "shinycssloaders", "shinydashboard", "shinyjs", "stringr", "zeallot"]
|
|
},
|
|
"sangerseqR": {
|
|
"name": "sangerseqR",
|
|
"version": "1.40.0",
|
|
"sha256": "01z2b7950yxhv8p73rfmq84bscrlpl956ihfyarnzdq9v9ljzzd9",
|
|
"depends": ["Biostrings", "pwalign", "shiny", "stringr"]
|
|
},
|
|
"sarks": {
|
|
"name": "sarks",
|
|
"version": "1.16.0",
|
|
"sha256": "1ayfxfgk1zwmychdlhbq3can76swa127z5r587frs3c23zbm8qi2",
|
|
"depends": ["Biostrings", "IRanges", "binom", "cluster", "rJava"]
|
|
},
|
|
"saseR": {
|
|
"name": "saseR",
|
|
"version": "1.0.0",
|
|
"sha256": "1ibr75zm09h9cwzizljlv33s09y2jz2fasnblhmm59xdb8gwl7vg",
|
|
"depends": ["ASpli", "BiocGenerics", "BiocParallel", "DESeq2", "DEXSeq", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "MASS", "MatrixGenerics", "PRROC", "S4Vectors", "SummarizedExperiment", "data_table", "dplyr", "edgeR", "igraph", "knitr", "limma", "pracma", "precrec", "rrcov"]
|
|
},
|
|
"satuRn": {
|
|
"name": "satuRn",
|
|
"version": "1.12.0",
|
|
"sha256": "03mlb4j219w8760zm5hnryjwxns3qz9y3wl6zaqdfnl94bwyl9r8",
|
|
"depends": ["BiocParallel", "Matrix", "SummarizedExperiment", "boot", "ggplot2", "limma", "locfdr", "pbapply"]
|
|
},
|
|
"scAnnotatR": {
|
|
"name": "scAnnotatR",
|
|
"version": "1.10.0",
|
|
"sha256": "1gzssp7im1d9pp2mbar27k854fcc3rqyza5d77flmhshq88xrskv",
|
|
"depends": ["AnnotationHub", "ROCR", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "ape", "caret", "data_tree", "dplyr", "e1071", "ggplot2", "kernlab", "pROC"]
|
|
},
|
|
"scBFA": {
|
|
"name": "scBFA",
|
|
"version": "1.18.0",
|
|
"sha256": "0zq4xnvzlprhlv2n7d41ikms6cmwvm51sn3f61841ch6hdfai7my",
|
|
"depends": ["DESeq2", "MASS", "Matrix", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "copula", "ggplot2", "zinbwave"]
|
|
},
|
|
"scBubbletree": {
|
|
"name": "scBubbletree",
|
|
"version": "1.6.0",
|
|
"sha256": "0adzmw4bzs1a857bwwq63niwgn5wm3mdqxbqhily49h7yxnf3rv7",
|
|
"depends": ["Seurat", "ape", "future", "future_apply", "ggplot2", "ggtree", "patchwork", "proxy", "reshape2", "scales"]
|
|
},
|
|
"scCB2": {
|
|
"name": "scCB2",
|
|
"version": "1.14.0",
|
|
"sha256": "1iwcx1wra4f3lnqsmbs5m0agd6ffmpmdwn767n8q0qgvy8sdjaw0",
|
|
"depends": ["DropletUtils", "Matrix", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "doParallel", "edgeR", "foreach", "iterators", "rhdf5"]
|
|
},
|
|
"scClassify": {
|
|
"name": "scClassify",
|
|
"version": "1.16.0",
|
|
"sha256": "1ymrxm5xmhiaj5vzv2xy35pxn0jxjjjdzclx7f3qznbxyfkd35nm",
|
|
"depends": ["BiocParallel", "Cepo", "Matrix", "S4Vectors", "cluster", "diptest", "ggplot2", "ggraph", "hopach", "igraph", "limma", "mgcv", "minpack_lm", "mixtools", "proxy", "proxyC", "statmod"]
|
|
},
|
|
"scDD": {
|
|
"name": "scDD",
|
|
"version": "1.28.0",
|
|
"sha256": "106hawmyln6xj9m2npibb4lkd8qvz60lwjabhn3cpx3908x88ryb",
|
|
"depends": ["BiocParallel", "EBSeq", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "arm", "fields", "ggplot2", "mclust", "outliers", "scran"]
|
|
},
|
|
"scDDboost": {
|
|
"name": "scDDboost",
|
|
"version": "1.6.0",
|
|
"sha256": "0q4vrrcnnhwb3r9jn13d1wsjn9mxai39pxaa9lf6zmg1v17aqmhg",
|
|
"depends": ["BH", "BiocParallel", "EBSeq", "Oscope", "Rcpp", "RcppEigen", "SingleCellExperiment", "SummarizedExperiment", "cluster", "ggplot2", "mclust"]
|
|
},
|
|
"scDataviz": {
|
|
"name": "scDataviz",
|
|
"version": "1.14.0",
|
|
"sha256": "1njm8ym44ml51sbz001niclmkl4q78yid8ik76j9xnwldd9cb2c8",
|
|
"depends": ["MASS", "RColorBrewer", "S4Vectors", "Seurat", "SingleCellExperiment", "corrplot", "flowCore", "ggplot2", "ggrepel", "matrixStats", "reshape2", "scales", "umap"]
|
|
},
|
|
"scDblFinder": {
|
|
"name": "scDblFinder",
|
|
"version": "1.18.0",
|
|
"sha256": "1np3arhjxxgif68i0wi0nqqbrwavy14dh9vy2g9mw4408k7789w0",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "IRanges", "MASS", "Matrix", "Rsamtools", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "bluster", "igraph", "rtracklayer", "scater", "scran", "scuttle", "xgboost"]
|
|
},
|
|
"scDesign3": {
|
|
"name": "scDesign3",
|
|
"version": "1.2.0",
|
|
"sha256": "0jf8g5llkcashxsjsm39fivdqpyjx40gn362yzpwcfh81f4x95x1",
|
|
"depends": ["BiocParallel", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "coop", "dplyr", "gamlss", "gamlss_dist", "ggplot2", "irlba", "matrixStats", "mclust", "mgcv", "mvtnorm", "pbmcapply", "rvinecopulib", "sparseMVN", "tibble", "umap", "viridis"]
|
|
},
|
|
"scFeatureFilter": {
|
|
"name": "scFeatureFilter",
|
|
"version": "1.24.0",
|
|
"sha256": "1lxgk9dki9l4qjgm3myqrjg59a4avd2h6phaibxk28rsh7agzw5h",
|
|
"depends": ["dplyr", "ggplot2", "magrittr", "rlang", "tibble"]
|
|
},
|
|
"scFeatures": {
|
|
"name": "scFeatures",
|
|
"version": "1.4.0",
|
|
"sha256": "178xpi6r1avbp4g9v5yd46jhnra6md47mljpn9y8a5991wh0rc4i",
|
|
"depends": ["AUCell", "BiocParallel", "DT", "DelayedArray", "DelayedMatrixStats", "EnsDb_Hsapiens_v79", "EnsDb_Mmusculus_v79", "GSVA", "MatrixGenerics", "Seurat", "SingleCellSignalR", "ape", "cli", "dplyr", "ensembldb", "glue", "gtools", "msigdbr", "proxyC", "reshape2", "rmarkdown", "spatstat_explore", "spatstat_geom", "tidyr"]
|
|
},
|
|
"scGPS": {
|
|
"name": "scGPS",
|
|
"version": "1.18.0",
|
|
"sha256": "1l4rn2amrgih6fi3dshxdjgmvimv93qfan6asy77lgaf8vwa7rlh",
|
|
"depends": ["DESeq2", "Rcpp", "RcppArmadillo", "RcppParallel", "SingleCellExperiment", "SummarizedExperiment", "caret", "dplyr", "dynamicTreeCut", "fastcluster", "ggplot2", "glmnet", "locfit"]
|
|
},
|
|
"scHOT": {
|
|
"name": "scHOT",
|
|
"version": "1.16.0",
|
|
"sha256": "07sk0yn5ji2avhmdwyzdl466pqncvij1zf0yicw5lpb62f1ac446",
|
|
"depends": ["BiocParallel", "IRanges", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ggforce", "ggplot2", "igraph", "reshape"]
|
|
},
|
|
"scMET": {
|
|
"name": "scMET",
|
|
"version": "1.6.0",
|
|
"sha256": "1v0x40720npv2c468mhydycrhff9bz2c8m35n3j4y7bja05qaazx",
|
|
"depends": ["BH", "BiocStyle", "MASS", "Matrix", "Rcpp", "RcppEigen", "RcppParallel", "S4Vectors", "SingleCellExperiment", "StanHeaders", "SummarizedExperiment", "VGAM", "assertthat", "coda", "cowplot", "data_table", "dplyr", "ggplot2", "logitnorm", "matrixStats", "rstan", "rstantools", "viridis"]
|
|
},
|
|
"scMerge": {
|
|
"name": "scMerge",
|
|
"version": "1.20.0",
|
|
"sha256": "0v344a2r7hw0x3b3192796sa922sc3jgi7z7pzbx6pcn4c5c9zw4",
|
|
"depends": ["BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "M3Drop", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "batchelor", "cluster", "cvTools", "distr", "igraph", "proxyC", "ruv", "scater", "scran"]
|
|
},
|
|
"scMitoMut": {
|
|
"name": "scMitoMut",
|
|
"version": "1.0.0",
|
|
"sha256": "143h22x71pgmzky1z6g6qvqq1qcb1852341sfsv4dwj2w5j00njm",
|
|
"depends": ["RColorBrewer", "Rcpp", "RcppArmadillo", "data_table", "ggplot2", "magrittr", "pheatmap", "plyr", "readr", "rhdf5", "stringr", "zlibbioc"]
|
|
},
|
|
"scMultiSim": {
|
|
"name": "scMultiSim",
|
|
"version": "1.0.0",
|
|
"sha256": "16kdxksszq0zhl7z1xavsr5s5fq9259g86pfbg2bqdwqhl1xgf70",
|
|
"depends": ["KernelKnn", "MASS", "Rtsne", "SummarizedExperiment", "ape", "assertthat", "crayon", "dplyr", "foreach", "ggplot2", "gplots", "igraph", "markdown", "matrixStats", "phytools", "rlang", "zeallot"]
|
|
},
|
|
"scPCA": {
|
|
"name": "scPCA",
|
|
"version": "1.18.0",
|
|
"sha256": "00lfwv1l9w9wjqqpgy9hx2sxb7lps7av3lpr5670c2ncf30jm68m",
|
|
"depends": ["BiocParallel", "DelayedArray", "Matrix", "MatrixGenerics", "RSpectra", "Rdpack", "ScaledMatrix", "assertthat", "cluster", "coop", "dplyr", "elasticnet", "kernlab", "matrixStats", "origami", "purrr", "sparsepca", "stringr", "tibble"]
|
|
},
|
|
"scPipe": {
|
|
"name": "scPipe",
|
|
"version": "2.4.0",
|
|
"sha256": "0n786qxxkfiag88fi4bsf9vgmvx179cxfah6sld5ij34vq224809",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "Biostrings", "DropletUtils", "GGally", "GenomicAlignments", "GenomicRanges", "IRanges", "MASS", "Matrix", "MultiAssayExperiment", "Rcpp", "Rhtslib", "Rsamtools", "Rsubread", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "basilisk", "biomaRt", "data_table", "dplyr", "flexmix", "ggplot2", "glue", "hash", "magrittr", "mclust", "org_Hs_eg_db", "org_Mm_eg_db", "purrr", "reshape", "reticulate", "rlang", "robustbase", "rtracklayer", "scales", "stringr", "testthat", "tibble", "tidyr", "vctrs", "zlibbioc"]
|
|
},
|
|
"scRNAseqApp": {
|
|
"name": "scRNAseqApp",
|
|
"version": "1.4.0",
|
|
"sha256": "19wwsmslhya3m5qmqyg6pmm510r0zrh8480h1z8b7jcmkkhyla81",
|
|
"depends": ["ComplexHeatmap", "DBI", "DT", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "RSQLite", "RefManageR", "Rsamtools", "S4Vectors", "Seurat", "SeuratObject", "SingleCellExperiment", "bibtex", "bslib", "circlize", "data_table", "ggdendro", "ggforce", "ggplot2", "ggrepel", "ggridges", "gridExtra", "htmltools", "jsonlite", "magrittr", "patchwork", "plotly", "rhdf5", "rtracklayer", "scales", "scrypt", "shiny", "shinyhelper", "shinymanager", "slingshot", "sortable", "xfun", "xml2"]
|
|
},
|
|
"scReClassify": {
|
|
"name": "scReClassify",
|
|
"version": "1.10.0",
|
|
"sha256": "1m7l19kyfnwzk2wcmc9v5xmssfx1nm4v00z986s4xx7mhhx05dki",
|
|
"depends": ["SingleCellExperiment", "SummarizedExperiment", "e1071", "randomForest"]
|
|
},
|
|
"scRecover": {
|
|
"name": "scRecover",
|
|
"version": "1.20.0",
|
|
"sha256": "0nxxsgm7sr4mlskgflbf3xi322j67zfdvbk6vxwwp5bxil2r0m13",
|
|
"depends": ["BiocParallel", "MASS", "Matrix", "SAVER", "bbmle", "doParallel", "foreach", "gamlss", "kernlab", "penalized", "preseqR", "pscl", "rsvd"]
|
|
},
|
|
"scRepertoire": {
|
|
"name": "scRepertoire",
|
|
"version": "2.0.0",
|
|
"sha256": "1ifnyfzswisacvxxf041l1snfv1b8x30pjg2pwampg804c56f1wj",
|
|
"depends": ["Rcpp", "S4Vectors", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "VGAM", "cubature", "dplyr", "evmix", "ggalluvial", "ggdendro", "ggplot2", "ggraph", "hash", "iNEXT", "igraph", "plyr", "quantreg", "reshape2", "rjson", "rlang", "stringdist", "stringr", "tidygraph", "truncdist"]
|
|
},
|
|
"scShapes": {
|
|
"name": "scShapes",
|
|
"version": "1.10.0",
|
|
"sha256": "003948wggm6hss2yl9hizil0jv78yd3jipvrs9js8c93fp78cbrw",
|
|
"depends": ["BiocParallel", "MASS", "Matrix", "VGAM", "dgof", "emdbook", "magrittr", "pscl"]
|
|
},
|
|
"scTGIF": {
|
|
"name": "scTGIF",
|
|
"version": "1.18.0",
|
|
"sha256": "13sj8gqmjaq2qcap7dh8gb2di4v59qw3g7l7ryc7crfmj7c9wipd",
|
|
"depends": ["Biobase", "BiocStyle", "GSEABase", "RColorBrewer", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "igraph", "knitr", "msigdbr", "nnTensor", "plotly", "rmarkdown", "scales", "schex", "tagcloud", "tibble"]
|
|
},
|
|
"scTHI": {
|
|
"name": "scTHI",
|
|
"version": "1.16.0",
|
|
"sha256": "0p9k1fh4k2gqv326vfxshmcwsqpyz5zhsr0xnzw9iz7rykpf7m81",
|
|
"depends": ["BiocParallel", "Rtsne"]
|
|
},
|
|
"scTensor": {
|
|
"name": "scTensor",
|
|
"version": "2.14.0",
|
|
"sha256": "1s4ayn2wx63zfqj6vh2zmnb6a3khwfwq5s7jsllgdwcxq8039i11",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocManager", "BiocStyle", "Category", "DOSE", "GOstats", "MeSHDbi", "RSQLite", "ReactomePA", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "abind", "ccTensor", "checkmate", "crayon", "ggplot2", "heatmaply", "igraph", "knitr", "meshr", "nnTensor", "outliers", "plotly", "plotrix", "rTensor", "reactome_db", "rmarkdown", "schex", "tagcloud", "visNetwork"]
|
|
},
|
|
"scTreeViz": {
|
|
"name": "scTreeViz",
|
|
"version": "1.10.0",
|
|
"sha256": "1vmqd4bml6ikpbbd90kqrrfhi1bkv9vdjlxcai588807vcckg54a",
|
|
"depends": ["Matrix", "Rtsne", "S4Vectors", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "clustree", "data_table", "digest", "epivizr", "epivizrData", "epivizrServer", "ggplot2", "ggraph", "httr", "igraph", "scater", "scran", "sys"]
|
|
},
|
|
"scanMiR": {
|
|
"name": "scanMiR",
|
|
"version": "1.10.0",
|
|
"sha256": "1nmkfpkvq3qbgnql8c7glmxjyszwqp546v1ah78crnn3lnqkdchx",
|
|
"depends": ["BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "cowplot", "data_table", "ggplot2", "pwalign", "seqLogo", "stringi"]
|
|
},
|
|
"scanMiRApp": {
|
|
"name": "scanMiRApp",
|
|
"version": "1.10.0",
|
|
"sha256": "12id6sla58gk1xj56vh7aamkrplx85f2am58brq3p384z5inx9kj",
|
|
"depends": ["AnnotationDbi", "AnnotationFilter", "AnnotationHub", "BiocParallel", "Biostrings", "DT", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "data_table", "digest", "ensembldb", "fst", "ggplot2", "htmlwidgets", "plotly", "rintrojs", "rtracklayer", "scanMiR", "scanMiRData", "shiny", "shinycssloaders", "shinydashboard", "shinyjqui", "txdbmaker", "waiter"]
|
|
},
|
|
"scater": {
|
|
"name": "scater",
|
|
"version": "1.32.1",
|
|
"sha256": "1052jlflk596q8dbzhwx150ql53lhz109lljc011ni42a5zvjnbm",
|
|
"depends": ["BiocGenerics", "BiocNeighbors", "BiocParallel", "BiocSingular", "DelayedArray", "Matrix", "MatrixGenerics", "RColorBrewer", "RcppML", "Rtsne", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "ggbeeswarm", "ggplot2", "ggrastr", "ggrepel", "pheatmap", "rlang", "scuttle", "uwot", "viridis"]
|
|
},
|
|
"scatterHatch": {
|
|
"name": "scatterHatch",
|
|
"version": "1.10.0",
|
|
"sha256": "1pxax6kyh5izn00g3vp1b94zcsm1qg7sq2f307zg8v3i53sajl54",
|
|
"depends": ["ggplot2", "plyr", "spatstat_geom"]
|
|
},
|
|
"sccomp": {
|
|
"name": "sccomp",
|
|
"version": "1.8.0",
|
|
"sha256": "1dgv5pyf765p84i070fwdmhj1878rcimzjd6n3kx8j5r7mv10ff5",
|
|
"depends": ["BH", "Rcpp", "RcppEigen", "RcppParallel", "SeuratObject", "SingleCellExperiment", "StanHeaders", "boot", "dplyr", "forcats", "ggplot2", "ggrepel", "glue", "lifecycle", "magrittr", "patchwork", "purrr", "readr", "rlang", "rstan", "rstantools", "scales", "stringr", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"scde": {
|
|
"name": "scde",
|
|
"version": "2.32.0",
|
|
"sha256": "0s54h3p8kvlk7imv8w8m1gwslyahn6jrggpkbgga5z7mqakvag6c",
|
|
"depends": ["BiocParallel", "Cairo", "MASS", "RColorBrewer", "RMTstat", "Rcpp", "RcppArmadillo", "Rook", "edgeR", "extRemes", "flexmix", "mgcv", "nnet", "pcaMethods", "quantreg", "rjson"]
|
|
},
|
|
"scds": {
|
|
"name": "scds",
|
|
"version": "1.20.0",
|
|
"sha256": "19xma4kmx8s6m6dvqyw461ahqyfqb7z3n5dz4ppab4xcpmqvx0vh",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "pROC", "xgboost"]
|
|
},
|
|
"schex": {
|
|
"name": "schex",
|
|
"version": "1.18.0",
|
|
"sha256": "1wb3sksxvj08zqg34scwg1xrzj3hdk2jmyqswd03cjppyjy3ysq6",
|
|
"depends": ["SingleCellExperiment", "cluster", "concaveman", "dplyr", "entropy", "ggforce", "ggplot2", "hexbin", "rlang"]
|
|
},
|
|
"scider": {
|
|
"name": "scider",
|
|
"version": "1.2.0",
|
|
"sha256": "0i1p5pf6jc2f39cfmi5d8ifc7lb5n7m7k0lkgif5vhm2z4nfhrnf",
|
|
"depends": ["S4Vectors", "SpatialExperiment", "SummarizedExperiment", "ggplot2", "igraph", "isoband", "janitor", "knitr", "lwgeom", "pheatmap", "plotly", "rlang", "sf", "shiny", "spatstat_explore", "spatstat_geom"]
|
|
},
|
|
"scifer": {
|
|
"name": "scifer",
|
|
"version": "1.6.0",
|
|
"sha256": "022dn1492hjiyxxq0mqhvs299lgzg26jik7y5brh0i0ajj1j63fv",
|
|
"depends": ["Biostrings", "DECIPHER", "data_table", "dplyr", "flowCore", "ggplot2", "gridExtra", "kableExtra", "knitr", "plyr", "rlang", "rmarkdown", "sangerseqR", "scales", "stringr", "tibble"]
|
|
},
|
|
"scmap": {
|
|
"name": "scmap",
|
|
"version": "1.26.0",
|
|
"sha256": "0acy3sg4j36znsfxpkb190wbawbngx15cr5x2lhgrjivvw3637x1",
|
|
"depends": ["Biobase", "BiocGenerics", "Rcpp", "RcppArmadillo", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "e1071", "ggplot2", "googleVis", "matrixStats", "proxy", "randomForest", "reshape2"]
|
|
},
|
|
"scmeth": {
|
|
"name": "scmeth",
|
|
"version": "1.24.0",
|
|
"sha256": "1yrww6b0lnh4831iw9adjimdazfa3f1w66pypzi99ywdcbdyksg8",
|
|
"depends": ["AnnotationHub", "BSgenome", "Biostrings", "DT", "DelayedArray", "GenomeInfoDb", "GenomicRanges", "HDF5Array", "SummarizedExperiment", "annotatr", "bsseq", "knitr", "reshape2", "rmarkdown"]
|
|
},
|
|
"scone": {
|
|
"name": "scone",
|
|
"version": "1.28.0",
|
|
"sha256": "1qvnc6cds3avxh1k4z47vb2fih7q8a5b9hccnyrpfks5c0sd6yi0",
|
|
"depends": ["BiocParallel", "MatrixGenerics", "RColorBrewer", "RUVSeq", "SingleCellExperiment", "SummarizedExperiment", "aroma_light", "boot", "class", "cluster", "compositions", "diptest", "edgeR", "fpc", "gplots", "hexbin", "limma", "matrixStats", "mixtools", "rARPACK", "rhdf5"]
|
|
},
|
|
"scoreInvHap": {
|
|
"name": "scoreInvHap",
|
|
"version": "1.26.0",
|
|
"sha256": "0sdawb2xsrwyqsk18rfzpk7f5ryl3pznawz3b6v5s143vg3d7s84",
|
|
"depends": ["BiocParallel", "Biostrings", "GenomicRanges", "SummarizedExperiment", "VariantAnnotation", "snpStats"]
|
|
},
|
|
"scp": {
|
|
"name": "scp",
|
|
"version": "1.14.0",
|
|
"sha256": "1b8hfvjpvni672qz6y53sy2wxbrn8anpanjd9qnixxisg94c66qj",
|
|
"depends": ["IHW", "MsCoreUtils", "MultiAssayExperiment", "QFeatures", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "ggrepel", "matrixStats", "metapod", "nipals"]
|
|
},
|
|
"scran": {
|
|
"name": "scran",
|
|
"version": "1.32.0",
|
|
"sha256": "0s1y2q4v596wxh8p5sr43mk9cnsc4kg36ld7vx71hbn3hwscqaa1",
|
|
"depends": ["BH", "BiocGenerics", "BiocParallel", "BiocSingular", "DelayedArray", "DelayedMatrixStats", "Matrix", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat", "bluster", "dqrng", "edgeR", "igraph", "limma", "metapod", "scuttle", "statmod"]
|
|
},
|
|
"screenCounter": {
|
|
"name": "screenCounter",
|
|
"version": "1.4.0",
|
|
"sha256": "0xq6ay76lnbbdibvyvkfk0nb8i8hxmvnxb4gfi2sj4ggsrz49rcz",
|
|
"depends": ["BiocParallel", "Rcpp", "S4Vectors", "SummarizedExperiment", "zlibbioc"]
|
|
},
|
|
"scruff": {
|
|
"name": "scruff",
|
|
"version": "1.22.0",
|
|
"sha256": "0gw8xj4agiz1j5lwp5zpa6m5k9wkkzrvcyzrrnqva1768v8123vb",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Rsamtools", "Rsubread", "S4Vectors", "ShortRead", "SingleCellExperiment", "SummarizedExperiment", "data_table", "ggbio", "ggplot2", "ggthemes", "parallelly", "plyr", "rtracklayer", "scales", "stringdist", "txdbmaker"]
|
|
},
|
|
"scry": {
|
|
"name": "scry",
|
|
"version": "1.16.0",
|
|
"sha256": "16489ff1nc798nfcmqvqaczm7hqffkhpad1dfgr7dxlahd8sbnw9",
|
|
"depends": ["BiocSingular", "DelayedArray", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "glmpca"]
|
|
},
|
|
"scuttle": {
|
|
"name": "scuttle",
|
|
"version": "1.14.0",
|
|
"sha256": "1cja56k5y5vi1x0jdxaxvh13fc2lzh8g30gp294pz6p61prrf3ws",
|
|
"depends": ["BiocGenerics", "BiocParallel", "DelayedArray", "DelayedMatrixStats", "GenomicRanges", "Matrix", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "beachmat"]
|
|
},
|
|
"scviR": {
|
|
"name": "scviR",
|
|
"version": "1.4.0",
|
|
"sha256": "0691v3kyhazmhzr2nqzc1inbc7i1kdjv4y94wl96fd20d48ypqhp",
|
|
"depends": ["BiocFileCache", "MatrixGenerics", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "basilisk", "limma", "pheatmap", "reticulate", "scater", "shiny"]
|
|
},
|
|
"sechm": {
|
|
"name": "sechm",
|
|
"version": "1.12.0",
|
|
"sha256": "0ig46ikddqqd9sclbxrv1gffc6snz0h7pindfw06cdk2i4dsan30",
|
|
"depends": ["ComplexHeatmap", "S4Vectors", "SummarizedExperiment", "circlize", "matrixStats", "randomcoloR", "seriation"]
|
|
},
|
|
"segmentSeq": {
|
|
"name": "segmentSeq",
|
|
"version": "2.38.0",
|
|
"sha256": "114sv9k2zlgsg82z57wwnp74hmq8p22gy5dg8my91xb3rzv3h8xw",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "ShortRead", "abind", "baySeq"]
|
|
},
|
|
"segmenter": {
|
|
"name": "segmenter",
|
|
"version": "1.10.0",
|
|
"sha256": "0s4iphqgwdr0shg71gr273s20q9vrzhxq3nfqqv494z7raycf1qy",
|
|
"depends": ["ChIPseeker", "ComplexHeatmap", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "bamsignals", "chromhmmData"]
|
|
},
|
|
"selectKSigs": {
|
|
"name": "selectKSigs",
|
|
"version": "1.16.0",
|
|
"sha256": "16cq4pg402a64vp0r1k9m91jqbdzij3la9gbzqqjc2vyr742yl14",
|
|
"depends": ["HiLDA", "Rcpp", "gtools", "magrittr"]
|
|
},
|
|
"semisup": {
|
|
"name": "semisup",
|
|
"version": "1.28.0",
|
|
"sha256": "0pmbjlgaqs9mbmyzg1d85ifp8pbjicyqs23jw8nnhlsrmpjgcywx",
|
|
"depends": ["VGAM"]
|
|
},
|
|
"seq_hotSPOT": {
|
|
"name": "seq.hotSPOT",
|
|
"version": "1.4.0",
|
|
"sha256": "0wyl4z54w1rk54c5sf3wvjg1sjpin0pj6j8j42g4a2zjkvvi5bva",
|
|
"depends": ["R_utils", "hash"]
|
|
},
|
|
"seq2pathway": {
|
|
"name": "seq2pathway",
|
|
"version": "1.36.0",
|
|
"sha256": "0l1a53m4gjbgf6f53nndzdxldvi0j7xawd7m05wr23v64qd8a0ng",
|
|
"depends": ["GSA", "GenomicRanges", "WGCNA", "biomaRt", "nnet", "seq2pathway_data"]
|
|
},
|
|
"seqArchR": {
|
|
"name": "seqArchR",
|
|
"version": "1.8.0",
|
|
"sha256": "0q0ip73hvjq2j39mznd980fyvbwm9yb4ihk8yihv97i8h559ml9w",
|
|
"depends": ["BiocParallel", "Biostrings", "MASS", "Matrix", "cli", "cluster", "cvTools", "fpc", "ggplot2", "ggseqlogo", "matrixStats", "prettyunits", "reshape2", "reticulate"]
|
|
},
|
|
"seqArchRplus": {
|
|
"name": "seqArchRplus",
|
|
"version": "1.4.0",
|
|
"sha256": "0wk87l3346v6fm77pywrwcfhwbvswkrxv79809c0wycn84qlqd0p",
|
|
"depends": ["BSgenome", "BiocParallel", "Biostrings", "ChIPseeker", "GenomeInfoDb", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "cli", "clusterProfiler", "cowplot", "factoextra", "ggimage", "ggplot2", "gridExtra", "heatmaps", "magick", "scales", "seqArchR", "seqPattern"]
|
|
},
|
|
"seqCAT": {
|
|
"name": "seqCAT",
|
|
"version": "1.26.0",
|
|
"sha256": "1b9y45src6yfz8fmiihp6p2s76gz1nva5swnf8fbar4mranfwi73",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "dplyr", "ggplot2", "rlang", "rtracklayer", "scales", "tidyr"]
|
|
},
|
|
"seqLogo": {
|
|
"name": "seqLogo",
|
|
"version": "1.70.0",
|
|
"sha256": "154c3g4i6snsi8vkwjw4d8lyr3372d6vyw237nslw1y5n837yzir",
|
|
"depends": []
|
|
},
|
|
"seqPattern": {
|
|
"name": "seqPattern",
|
|
"version": "1.36.0",
|
|
"sha256": "0iv0dhs1z8i0jglh1iw6ypzh6qslnn5xly2kjfxaxk9cggnjb5h6",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "KernSmooth", "plotrix"]
|
|
},
|
|
"seqTools": {
|
|
"name": "seqTools",
|
|
"version": "1.38.0",
|
|
"sha256": "0sc2siflk12dnmmqsb0gfbncyh5w6cv58dba304ig7rg3vsk3277",
|
|
"depends": ["zlibbioc"]
|
|
},
|
|
"seqcombo": {
|
|
"name": "seqcombo",
|
|
"version": "1.26.0",
|
|
"sha256": "119wpz4rl5fyhc60myaw9d498n19pshnwwrmxkqx8pnqz9g6jjpq",
|
|
"depends": ["ggplot2", "igraph", "yulab_utils"]
|
|
},
|
|
"seqsetvis": {
|
|
"name": "seqsetvis",
|
|
"version": "1.24.0",
|
|
"sha256": "1aazar9k36hwlx9fq6iyd7f6g764nih9f0phl0sla7gizrmpwsms",
|
|
"depends": ["GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "S4Vectors", "UpSetR", "cowplot", "data_table", "eulerr", "ggplot2", "ggplotify", "limma", "pbapply", "pbmcapply", "png", "rtracklayer", "scales"]
|
|
},
|
|
"sesame": {
|
|
"name": "sesame",
|
|
"version": "1.22.2",
|
|
"sha256": "1d2vjglpbhmr4fjp3zwipf0nwj5pms4l9q1xngyxrsbr26x7jp1d",
|
|
"depends": ["BiocFileCache", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "MASS", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "preprocessCore", "readr", "reshape2", "sesameData", "stringr", "tibble", "wheatmap"]
|
|
},
|
|
"sevenC": {
|
|
"name": "sevenC",
|
|
"version": "1.24.0",
|
|
"sha256": "0x1r6zbwl6shhzf2xc7lp06dvlhqhgh70i71fwn25lndwyhkw280",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "IRanges", "InteractionSet", "S4Vectors", "boot", "data_table", "purrr", "readr", "rtracklayer"]
|
|
},
|
|
"sevenbridges": {
|
|
"name": "sevenbridges",
|
|
"version": "1.34.0",
|
|
"sha256": "0vy7vz87z371q2plhxkp5src6la6hj1w7bd4xkqbm3nmym2p32pb",
|
|
"depends": ["S4Vectors", "curl", "data_table", "docopt", "httr", "jsonlite", "objectProperties", "stringr", "uuid", "yaml"]
|
|
},
|
|
"shiny_gosling": {
|
|
"name": "shiny.gosling",
|
|
"version": "1.0.1",
|
|
"sha256": "1dig8hv7pw3p6ra1z76mg7sfbvdrdaprsix9i60503sriqs3arv2",
|
|
"depends": ["digest", "fs", "htmltools", "jsonlite", "rjson", "rlang", "shiny", "shiny_react"]
|
|
},
|
|
"shinyMethyl": {
|
|
"name": "shinyMethyl",
|
|
"version": "1.40.0",
|
|
"sha256": "15r9x1fqladjviyisbhr8zff0a6g9kvbvx72xcp3bfadp3wpygds",
|
|
"depends": ["Biobase", "BiocGenerics", "MatrixGenerics", "RColorBrewer", "htmltools", "minfi", "shiny"]
|
|
},
|
|
"shinyepico": {
|
|
"name": "shinyepico",
|
|
"version": "1.12.0",
|
|
"sha256": "0k6h2n8dy66k1vl5mrag45z5knhgn9xbim5b0nbrzh9pwi687nc1",
|
|
"depends": ["DT", "GenomicRanges", "data_table", "doParallel", "dplyr", "foreach", "ggplot2", "gplots", "heatmaply", "limma", "minfi", "plotly", "reshape2", "rlang", "rmarkdown", "rtracklayer", "shiny", "shinyWidgets", "shinycssloaders", "shinyjs", "shinythemes", "statmod", "tidyr", "zip"]
|
|
},
|
|
"sigFeature": {
|
|
"name": "sigFeature",
|
|
"version": "1.22.0",
|
|
"sha256": "0hgdzjlxxsxmrjrdlzabssdisn1rmi6h9nd37gid4dbr8xd1ibyh",
|
|
"depends": ["BiocParallel", "Matrix", "RColorBrewer", "SparseM", "SummarizedExperiment", "biocViews", "e1071", "nlme", "openxlsx", "pheatmap"]
|
|
},
|
|
"siggenes": {
|
|
"name": "siggenes",
|
|
"version": "1.78.0",
|
|
"sha256": "0j4nhdq82dzr19x5w4w4l97clra0z1kk6n24x56hrrj0xlm2cgnm",
|
|
"depends": ["Biobase", "multtest", "scrime"]
|
|
},
|
|
"sights": {
|
|
"name": "sights",
|
|
"version": "1.30.0",
|
|
"sha256": "0kr52ng79wz6rh0rhk5kmjskn04xr89h14bdhryyzkhq80v0c2k8",
|
|
"depends": ["MASS", "ggplot2", "lattice", "qvalue", "reshape2"]
|
|
},
|
|
"signatureSearch": {
|
|
"name": "signatureSearch",
|
|
"version": "1.18.0",
|
|
"sha256": "1b32n67f5c804xxbpwxpykjhakixzf5zd1zbgwj976lvdb2adl34",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "DOSE", "DelayedArray", "ExperimentHub", "GSEABase", "HDF5Array", "Matrix", "RSQLite", "Rcpp", "SummarizedExperiment", "clusterProfiler", "data_table", "dplyr", "fastmatch", "fgsea", "ggplot2", "magrittr", "org_Hs_eg_db", "qvalue", "reactome_db", "readr", "reshape2", "rhdf5", "scales", "tibble", "visNetwork"]
|
|
},
|
|
"signeR": {
|
|
"name": "signeR",
|
|
"version": "2.6.0",
|
|
"sha256": "0jc9z48sgzjgxdidp9qhn4ccnx7jjlj0xnfrwajh0xq0ai1vnqb6",
|
|
"depends": ["BSgenome", "BiocFileCache", "BiocGenerics", "Biostrings", "DT", "GenomeInfoDb", "GenomicRanges", "IRanges", "MASS", "NMF", "PMCMRplus", "RColorBrewer", "Rcpp", "RcppArmadillo", "VGAM", "VariantAnnotation", "ada", "bsplus", "class", "clue", "cowplot", "dplyr", "e1071", "future", "future_apply", "ggplot2", "ggpubr", "glmnet", "kknn", "listenv", "magrittr", "maxstat", "nloptr", "pROC", "pheatmap", "ppclust", "proxy", "pvclust", "randomForest", "readr", "reshape2", "rtracklayer", "scales", "shiny", "shinyWidgets", "shinycssloaders", "shinydashboard", "survival", "survivalAnalysis", "survminer", "tibble", "tidyr"]
|
|
},
|
|
"signifinder": {
|
|
"name": "signifinder",
|
|
"version": "1.6.0",
|
|
"sha256": "0r6acaqk7zaryy8ddpfischw08b6sml3cydrw8v9wys0rfv207pb",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "ComplexHeatmap", "DGEobj_utils", "GSVA", "IRanges", "RColorBrewer", "SpatialExperiment", "SummarizedExperiment", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "consensusOV", "cowplot", "dplyr", "ensembldb", "ggplot2", "ggridges", "magrittr", "matrixStats", "maxstat", "openair", "org_Hs_eg_db", "patchwork", "sparrow", "survival", "survminer", "viridis"]
|
|
},
|
|
"sigsquared": {
|
|
"name": "sigsquared",
|
|
"version": "1.36.0",
|
|
"sha256": "19z9jfiacm4idh4638vk358jrl8zkg6jay7r07hkqpc3m6i0ysa0",
|
|
"depends": ["Biobase", "survival"]
|
|
},
|
|
"simPIC": {
|
|
"name": "simPIC",
|
|
"version": "1.0.0",
|
|
"sha256": "0qspzkpdfpya2hkj1lry68cybcsscw9xj5ycpg87xg38n3jyqcbm",
|
|
"depends": ["BiocGenerics", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "actuar", "checkmate", "fitdistrplus", "matrixStats", "rlang", "scales", "scuttle"]
|
|
},
|
|
"similaRpeak": {
|
|
"name": "similaRpeak",
|
|
"version": "1.36.0",
|
|
"sha256": "12im06jfjy3b00bga1sskxn15b1bsbhybsqi8lw9pgwx2hmrf4hb",
|
|
"depends": ["R6"]
|
|
},
|
|
"simona": {
|
|
"name": "simona",
|
|
"version": "1.2.0",
|
|
"sha256": "04ynhnkb9qnniyvavfylg010pyry843362pjcw94kw9bwnklscy5",
|
|
"depends": ["ComplexHeatmap", "GetoptLong", "GlobalOptions", "Polychrome", "Rcpp", "S4Vectors", "circlize", "igraph", "matrixStats", "shiny", "xml2"]
|
|
},
|
|
"simpleSeg": {
|
|
"name": "simpleSeg",
|
|
"version": "1.6.1",
|
|
"sha256": "0rmd9kclh6x9gxqncw25563c4vh2xk206iia0qc058w9lbzqyp5f",
|
|
"depends": ["BiocParallel", "EBImage", "S4Vectors", "SummarizedExperiment", "cytomapper", "spatstat_geom", "terra"]
|
|
},
|
|
"simplifyEnrichment": {
|
|
"name": "simplifyEnrichment",
|
|
"version": "1.14.0",
|
|
"sha256": "1031rkl2gcgx4k1biz4bc38hfq7r6diqk48769jhii0r06ablrhi",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "ComplexHeatmap", "GOSemSim", "GO_db", "GetoptLong", "GlobalOptions", "Matrix", "circlize", "clue", "cluster", "colorspace", "digest", "org_Hs_eg_db", "proxyC", "slam", "tm"]
|
|
},
|
|
"sincell": {
|
|
"name": "sincell",
|
|
"version": "1.36.0",
|
|
"sha256": "1028mdjjxbnw5fzsdyjjgy7v6yhslhhm7053q3889yqamw0l82fg",
|
|
"depends": ["MASS", "Rcpp", "Rtsne", "TSP", "cluster", "entropy", "fastICA", "fields", "ggplot2", "igraph", "proxy", "reshape2", "scatterplot3d", "statmod"]
|
|
},
|
|
"single": {
|
|
"name": "single",
|
|
"version": "1.7.0",
|
|
"sha256": "0h7h9m4xr65nayr707jvjnbic1q4z0hsghw5i3pfpz2n6p9pb8s8",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicAlignments", "IRanges", "Rsamtools", "dplyr", "reshape2", "rlang", "stringr", "tidyr"]
|
|
},
|
|
"singleCellTK": {
|
|
"name": "singleCellTK",
|
|
"version": "2.14.0",
|
|
"sha256": "06qpdl1k5c94rsnbnb4vkml1sahvav3pkr71hfkqikyscbydnay4",
|
|
"depends": ["AnnotationHub", "Biobase", "BiocParallel", "ComplexHeatmap", "DESeq2", "DT", "DelayedArray", "DelayedMatrixStats", "DropletUtils", "ExperimentHub", "GSEABase", "GSVA", "GSVAdata", "KernSmooth", "MAST", "Matrix", "ROCR", "R_utils", "Rtsne", "S4Vectors", "Seurat", "SingleCellExperiment", "SingleR", "SoupX", "SummarizedExperiment", "TENxPBMCData", "TSCAN", "TrajectoryUtils", "VAM", "anndata", "ape", "batchelor", "celda", "celldex", "circlize", "cluster", "colorspace", "colourpicker", "cowplot", "data_table", "dplyr", "eds", "enrichR", "ensembldb", "fields", "ggplot2", "ggplotify", "ggrepel", "ggtree", "gridExtra", "igraph", "limma", "magrittr", "matrixStats", "metap", "msigdbr", "multtest", "plotly", "plyr", "reshape2", "reticulate", "rlang", "rmarkdown", "scDblFinder", "scMerge", "scRNAseq", "scater", "scds", "scran", "scuttle", "shiny", "shinyalert", "shinycssloaders", "shinyjs", "sva", "tibble", "tximport", "withr", "yaml", "zellkonverter", "zinbwave"]
|
|
},
|
|
"singscore": {
|
|
"name": "singscore",
|
|
"version": "1.24.0",
|
|
"sha256": "12avzrc16mxz7v8jp4rxz5ia6008rjcja1h3hd0n60z644w9cng2",
|
|
"depends": ["Biobase", "BiocParallel", "GSEABase", "RColorBrewer", "S4Vectors", "SummarizedExperiment", "edgeR", "ggplot2", "ggrepel", "magrittr", "matrixStats", "plotly", "plyr", "reshape", "reshape2", "tidyr"]
|
|
},
|
|
"sitadela": {
|
|
"name": "sitadela",
|
|
"version": "1.12.0",
|
|
"sha256": "1ynq19116z228cakznkpxd7msqxbvbgax2k6rk0wh9xksi6qzkpg",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "Rsamtools", "S4Vectors", "biomaRt", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"sitePath": {
|
|
"name": "sitePath",
|
|
"version": "1.20.0",
|
|
"sha256": "10g25has168cj7xjpn0q3da9rm7dxg6n2ysb8yc974gxqkabhzjh",
|
|
"depends": ["RColorBrewer", "Rcpp", "ape", "aplot", "ggplot2", "ggrepel", "ggtree", "gridExtra", "seqinr", "tidytree"]
|
|
},
|
|
"sizepower": {
|
|
"name": "sizepower",
|
|
"version": "1.74.0",
|
|
"sha256": "0qqxvyd3kya0rjip4l41cmv3b9q7a2nb4l5hny591qr703vx31bq",
|
|
"depends": []
|
|
},
|
|
"sketchR": {
|
|
"name": "sketchR",
|
|
"version": "1.0.0",
|
|
"sha256": "0jsv2rizfh72hrk9jrlhgl36cksa97858h7w57fkihq2hq155n67",
|
|
"depends": ["Biobase", "DelayedArray", "basilisk", "dplyr", "ggplot2", "reticulate", "rlang", "scales"]
|
|
},
|
|
"skewr": {
|
|
"name": "skewr",
|
|
"version": "1.36.0",
|
|
"sha256": "1hh0519pqv6lq21plph7sy88918np12g7aw542sfblm81ma4p4qv",
|
|
"depends": ["IlluminaHumanMethylation450kmanifest", "RColorBrewer", "S4Vectors", "methylumi", "minfi", "mixsmsn", "wateRmelon"]
|
|
},
|
|
"slalom": {
|
|
"name": "slalom",
|
|
"version": "1.26.0",
|
|
"sha256": "0km062qb7k7g18zz03nr6m7nigzpbxkasgirc4igslz4sfcldd9x",
|
|
"depends": ["BH", "GSEABase", "Rcpp", "RcppArmadillo", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "rsvd"]
|
|
},
|
|
"slingshot": {
|
|
"name": "slingshot",
|
|
"version": "2.12.0",
|
|
"sha256": "055dylajbn94khi0829qhxx0lbn1pvh30xw09gjn1jvxsgzj49nc",
|
|
"depends": ["S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TrajectoryUtils", "igraph", "matrixStats", "princurve"]
|
|
},
|
|
"smartid": {
|
|
"name": "smartid",
|
|
"version": "1.0.2",
|
|
"sha256": "1bm8g8n3xifc2dg1d9vpw79vpwssa9q6ssvzyf77gp24zp2r734i",
|
|
"depends": ["Matrix", "SummarizedExperiment", "dplyr", "ggplot2", "mclust", "mixtools", "sparseMatrixStats", "tidyr"]
|
|
},
|
|
"smoothclust": {
|
|
"name": "smoothclust",
|
|
"version": "1.0.0",
|
|
"sha256": "17mcfjxsgdvignrx576v97iwapmkfc4my8pvm6b2y1w7pibilx65",
|
|
"depends": ["SpatialExperiment", "SummarizedExperiment", "sparseMatrixStats", "spdep"]
|
|
},
|
|
"snapcount": {
|
|
"name": "snapcount",
|
|
"version": "1.16.0",
|
|
"sha256": "1hjd6xdwgz2qal6scpldwpdqlrbgap45bq2h599df6hgvrdym3l7",
|
|
"depends": ["GenomicRanges", "IRanges", "Matrix", "R6", "SummarizedExperiment", "assertthat", "data_table", "httr", "jsonlite", "magrittr", "purrr", "rlang", "stringr"]
|
|
},
|
|
"snifter": {
|
|
"name": "snifter",
|
|
"version": "1.14.0",
|
|
"sha256": "1rmg6dq7sm7aisjrli8ya1wx2b0y0vngf5zksy1x77v6c5mk4b72",
|
|
"depends": ["assertthat", "basilisk", "irlba", "reticulate"]
|
|
},
|
|
"snm": {
|
|
"name": "snm",
|
|
"version": "1.52.0",
|
|
"sha256": "1xihnp2kvgj4lkdbf8l0km2s06j0zqpf91946riirbyk6iq3igrn",
|
|
"depends": ["corpcor", "lme4"]
|
|
},
|
|
"snpStats": {
|
|
"name": "snpStats",
|
|
"version": "1.54.0",
|
|
"sha256": "160pl3dy7v89i90x262hxqgipas4pyim600l6m50g3c03vm5in03",
|
|
"depends": ["BiocGenerics", "Matrix", "survival", "zlibbioc"]
|
|
},
|
|
"soGGi": {
|
|
"name": "soGGi",
|
|
"version": "1.36.0",
|
|
"sha256": "0z995iyffzglc26pava4icxl315b077983lxvaldz5xkyhgvgpz7",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "chipseq", "ggplot2", "preprocessCore", "reshape2", "rtracklayer"]
|
|
},
|
|
"spaSim": {
|
|
"name": "spaSim",
|
|
"version": "1.6.0",
|
|
"sha256": "1lac621ss7qhfrabyn3nsmgiif4bcgwrgzs1xvbvf4lvwcy7ychm",
|
|
"depends": ["RANN", "SpatialExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "spatstat_geom", "spatstat_random"]
|
|
},
|
|
"sparrow": {
|
|
"name": "sparrow",
|
|
"version": "1.10.1",
|
|
"sha256": "0vd18ws47zhx87bi35lmbh9wkp6s6d5nd9x77gd7fh24ni5z338s",
|
|
"depends": ["BiocGenerics", "BiocParallel", "BiocSet", "ComplexHeatmap", "DelayedMatrixStats", "GSEABase", "Matrix", "babelgene", "checkmate", "circlize", "data_table", "edgeR", "ggplot2", "irlba", "limma", "plotly", "viridis"]
|
|
},
|
|
"sparseMatrixStats": {
|
|
"name": "sparseMatrixStats",
|
|
"version": "1.16.0",
|
|
"sha256": "04hk9r6sh83dyxm2j7jdcj0m4g74ln218j21rs71c2gg6mrkmlgf",
|
|
"depends": ["Matrix", "MatrixGenerics", "Rcpp", "matrixStats"]
|
|
},
|
|
"sparsenetgls": {
|
|
"name": "sparsenetgls",
|
|
"version": "1.22.0",
|
|
"sha256": "1x8qzqsr2rzx6683lmzw5ia21853l7gj3m5jkx0r8azmjk4r6kqb",
|
|
"depends": ["MASS", "Matrix", "glmnet", "huge"]
|
|
},
|
|
"spatialDE": {
|
|
"name": "spatialDE",
|
|
"version": "1.10.0",
|
|
"sha256": "02npzs4vmjgc7bmv4rmmnz82slqcyrsq4y7wqapm30m7slhzm11g",
|
|
"depends": ["Matrix", "SpatialExperiment", "SummarizedExperiment", "basilisk", "checkmate", "ggplot2", "ggrepel", "gridExtra", "reticulate", "scales"]
|
|
},
|
|
"spatialHeatmap": {
|
|
"name": "spatialHeatmap",
|
|
"version": "2.10.2",
|
|
"sha256": "0arr3v3simkkq3wpf32jgm35s7mwbmpgn17g2y3glam37w8yc7gd",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "data_table", "dplyr", "edgeR", "genefilter", "ggplot2", "ggplotify", "gplots", "grImport", "gridExtra", "igraph", "reshape2", "rsvg", "scater", "scran", "scuttle", "shiny", "shinydashboard", "spsComps", "tibble", "xml2"]
|
|
},
|
|
"spatzie": {
|
|
"name": "spatzie",
|
|
"version": "1.10.0",
|
|
"sha256": "1jii3viq7ck1clkr59yafnh5a4pblskd77i1i3gxs7fpvl8ab7qb",
|
|
"depends": ["BSgenome", "BiocGenerics", "GenomeInfoDb", "GenomicFeatures", "GenomicInteractions", "GenomicRanges", "IRanges", "MatrixGenerics", "S4Vectors", "SummarizedExperiment", "TFBSTools", "ggplot2", "matrixStats", "motifmatchr"]
|
|
},
|
|
"specL": {
|
|
"name": "specL",
|
|
"version": "1.38.0",
|
|
"sha256": "0klg19h1ijwd9f7pary77zn52mp8ryzvhv6g3h5xg8yjv1kl9m7r",
|
|
"depends": ["DBI", "RSQLite", "protViz", "seqinr"]
|
|
},
|
|
"speckle": {
|
|
"name": "speckle",
|
|
"version": "1.4.0",
|
|
"sha256": "1m7fl9l20f65w5il3jhj930i71kb1bvsz0iqb7yi1nczjx1b6hcw",
|
|
"depends": ["Seurat", "SingleCellExperiment", "edgeR", "ggplot2", "limma"]
|
|
},
|
|
"spicyR": {
|
|
"name": "spicyR",
|
|
"version": "1.16.3",
|
|
"sha256": "0xy964xx99wklh44m41h3066hndxv04i1jh623612sidhj4viih3",
|
|
"depends": ["BiocParallel", "ClassifyR", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "cli", "concaveman", "data_table", "dplyr", "ggforce", "ggplot2", "lmerTest", "magrittr", "pheatmap", "rlang", "scam", "spatstat_explore", "spatstat_geom", "tibble", "tidyr"]
|
|
},
|
|
"spikeLI": {
|
|
"name": "spikeLI",
|
|
"version": "2.64.0",
|
|
"sha256": "1n8dbfaraal941djg1a065zdqsw6dacw92kj0615mq520wviwwqi",
|
|
"depends": []
|
|
},
|
|
"spiky": {
|
|
"name": "spiky",
|
|
"version": "1.10.0",
|
|
"sha256": "1cwvdqa4zy17nk6d04kg6rrsd6rk4f5nrg58pf882jn44rjfl49i",
|
|
"depends": ["BSgenome", "Biostrings", "BlandAltmanLeh", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "bamlss", "ggplot2", "scales"]
|
|
},
|
|
"spillR": {
|
|
"name": "spillR",
|
|
"version": "1.0.1",
|
|
"sha256": "18194i0zz2cz2wc69gpifk2s6h58acp57adlkp5ciwv68h2af5dd",
|
|
"depends": ["CATALYST", "S4Vectors", "SummarizedExperiment", "dplyr", "ggplot2", "spatstat_univar", "tibble", "tidyr", "tidyselect"]
|
|
},
|
|
"spkTools": {
|
|
"name": "spkTools",
|
|
"version": "1.60.0",
|
|
"sha256": "1q6vhhdfh5xwpkwfcbjlbv9s8rd5mzn98xqcns7ix5d3rcqk5ixk",
|
|
"depends": ["Biobase", "RColorBrewer", "gtools"]
|
|
},
|
|
"splatter": {
|
|
"name": "splatter",
|
|
"version": "1.28.0",
|
|
"sha256": "1drifr04nd8x40z6v0ig60l2zcm289kmxlmdy8siczn90xzy8cm7",
|
|
"depends": ["BiocGenerics", "BiocParallel", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "checkmate", "crayon", "edgeR", "fitdistrplus", "locfit", "matrixStats", "rlang", "scuttle", "withr"]
|
|
},
|
|
"splineTimeR": {
|
|
"name": "splineTimeR",
|
|
"version": "1.32.0",
|
|
"sha256": "0y4sydqmwpj5jwalhbf1zs6mqk447c7f22a5qy9pj8sqblh042rn",
|
|
"depends": ["Biobase", "FIs", "GSEABase", "GeneNet", "gtools", "igraph", "limma", "longitudinal"]
|
|
},
|
|
"splots": {
|
|
"name": "splots",
|
|
"version": "1.70.0",
|
|
"sha256": "0dr0d1c5v45vmfdpm6hkg4dbjx6c4y9hadpra8ym5bcmlsb14xaa",
|
|
"depends": ["RColorBrewer"]
|
|
},
|
|
"spoon": {
|
|
"name": "spoon",
|
|
"version": "1.0.0",
|
|
"sha256": "1ygrb534nlsxckbc61y5s3rjc4cpmf265y5a48charjv9y3ahw19",
|
|
"depends": ["BRISC", "BiocParallel", "Matrix", "SpatialExperiment", "SummarizedExperiment", "nnSVG", "scuttle"]
|
|
},
|
|
"spqn": {
|
|
"name": "spqn",
|
|
"version": "1.16.0",
|
|
"sha256": "0477rs2wq9319zj1pm7j96inhd38sqs85wvj06r47g2k77blcz87",
|
|
"depends": ["BiocGenerics", "SummarizedExperiment", "ggplot2", "ggridges", "matrixStats"]
|
|
},
|
|
"srnadiff": {
|
|
"name": "srnadiff",
|
|
"version": "1.24.0",
|
|
"sha256": "0gr754qb5gc0lh1r513yrfrys7q13a0kmbzmbx5m0p7wwp508mdg",
|
|
"depends": ["BiocManager", "BiocParallel", "BiocStyle", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "Rcpp", "Rsamtools", "S4Vectors", "SummarizedExperiment", "devtools", "edgeR", "rtracklayer"]
|
|
},
|
|
"ssPATHS": {
|
|
"name": "ssPATHS",
|
|
"version": "1.18.0",
|
|
"sha256": "0h2hs6snnh9kzqna94ndp3gk4bkldsxrg67fy6gx7d15agjl9y2s",
|
|
"depends": ["MESS", "ROCR", "SummarizedExperiment", "dml"]
|
|
},
|
|
"sscu": {
|
|
"name": "sscu",
|
|
"version": "2.34.0",
|
|
"sha256": "0ym9c6r2ny5j9lzcccllq29jl4g1021n5n0l8z51lgkypaq5zlik",
|
|
"depends": ["BiocGenerics", "Biostrings", "seqinr"]
|
|
},
|
|
"ssize": {
|
|
"name": "ssize",
|
|
"version": "1.78.0",
|
|
"sha256": "078mw9mb39liw4jalivgm1giib7pizizxyzmy4gzq8wb35psb39m",
|
|
"depends": ["gdata", "xtable"]
|
|
},
|
|
"ssrch": {
|
|
"name": "ssrch",
|
|
"version": "1.20.0",
|
|
"sha256": "16pc861c3ljrnagjc02pksymv24kp18380afqhz2isif0za8kl6d",
|
|
"depends": ["DT", "shiny"]
|
|
},
|
|
"ssviz": {
|
|
"name": "ssviz",
|
|
"version": "1.38.0",
|
|
"sha256": "0m5jh45v58f92m4ib7b1fy7gpixpvgm65gx2sw1qmx1qihp4hkrb",
|
|
"depends": ["Biostrings", "RColorBrewer", "Rsamtools", "ggplot2", "reshape"]
|
|
},
|
|
"stJoincount": {
|
|
"name": "stJoincount",
|
|
"version": "1.6.0",
|
|
"sha256": "1i8bkygxxl3cq8zjpfslakib1knivyc4wfil1sa4s0jcj4iyhlhx",
|
|
"depends": ["Seurat", "SpatialExperiment", "SummarizedExperiment", "dplyr", "ggplot2", "magrittr", "pheatmap", "raster", "sp", "spdep"]
|
|
},
|
|
"staRank": {
|
|
"name": "staRank",
|
|
"version": "1.46.0",
|
|
"sha256": "13z24si93h17hdiagjg26kv07bzyfl54iymb1jd7yn47924dr3n3",
|
|
"depends": ["cellHTS2"]
|
|
},
|
|
"stageR": {
|
|
"name": "stageR",
|
|
"version": "1.26.0",
|
|
"sha256": "0ayjwv2i9q8dzq5pzhyzkxzkz9ycka2v6ccvq5y9cg7x0mw4qvbh",
|
|
"depends": ["SummarizedExperiment"]
|
|
},
|
|
"standR": {
|
|
"name": "standR",
|
|
"version": "1.8.0",
|
|
"sha256": "0lnggcppcgd5k07yx5ig7gjyj7bkwk7mvs9l785mlr1wgmqz4vm0",
|
|
"depends": ["Biobase", "BiocGenerics", "RUVSeq", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "dplyr", "edgeR", "ggalluvial", "ggplot2", "limma", "mclustcomp", "patchwork", "readr", "rlang", "ruv", "tibble", "tidyr"]
|
|
},
|
|
"statTarget": {
|
|
"name": "statTarget",
|
|
"version": "1.34.0",
|
|
"sha256": "0p89j6isdyy7zlniqd42s7y50sjyd7a9fpg3hwi92ssvv77zdd4c",
|
|
"depends": ["ROC", "impute", "pdist", "pls", "plyr", "randomForest", "rrcov"]
|
|
},
|
|
"stepNorm": {
|
|
"name": "stepNorm",
|
|
"version": "1.76.0",
|
|
"sha256": "18v5hqcwnbzw8kwq9ahia36ikr3fd1cgwvx0rj32qbs66kr9phhz",
|
|
"depends": ["MASS", "marray"]
|
|
},
|
|
"strandCheckR": {
|
|
"name": "strandCheckR",
|
|
"version": "1.22.0",
|
|
"sha256": "05r9d87y158pbnakqcli94nbwfvl72bsl1wbmbjyhk3cp9r1si2d",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "TxDb_Hsapiens_UCSC_hg38_knownGene", "dplyr", "ggplot2", "gridExtra", "magrittr", "reshape2", "rmarkdown", "stringr"]
|
|
},
|
|
"struct": {
|
|
"name": "struct",
|
|
"version": "1.16.0",
|
|
"sha256": "086fjmhmywi8ciycnz29fgkjwmxws2d130fvgwmx504gf7l841lk",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "knitr", "ontologyIndex", "rols"]
|
|
},
|
|
"structToolbox": {
|
|
"name": "structToolbox",
|
|
"version": "1.16.0",
|
|
"sha256": "0a9hvwj6cgbs61m9vjfm704kp42mj05shjxnr79j8irfbx87q8w4",
|
|
"depends": ["ggplot2", "ggthemes", "gridExtra", "scales", "sp", "struct"]
|
|
},
|
|
"subSeq": {
|
|
"name": "subSeq",
|
|
"version": "1.34.0",
|
|
"sha256": "1pdjw0balc7lx92azfxxl80h2lkqhk5sx94cfzgw3cwb8s2abwka",
|
|
"depends": ["Biobase", "data_table", "digest", "dplyr", "ggplot2", "magrittr", "qvalue", "tidyr"]
|
|
},
|
|
"supersigs": {
|
|
"name": "supersigs",
|
|
"version": "1.12.0",
|
|
"sha256": "00rnd7h7xrbpr5jqz7l03pk6rlyqfcmkyrxpjwayz9gj2yc87lk3",
|
|
"depends": ["Biostrings", "SummarizedExperiment", "assertthat", "caret", "dplyr", "rlang", "rsample", "tidyr"]
|
|
},
|
|
"supraHex": {
|
|
"name": "supraHex",
|
|
"version": "1.42.0",
|
|
"sha256": "10qfvwbz5cbxvxbdmbc29jfp6apza4z70p4b9nfwgs4y95c11p7l",
|
|
"depends": ["MASS", "ape", "dplyr", "hexbin", "igraph", "magrittr", "purrr", "readr", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"surfaltr": {
|
|
"name": "surfaltr",
|
|
"version": "1.10.0",
|
|
"sha256": "1i7ssmnnv81x5nb63sbk07mkirb99bsn9kyy59n8ib03akygv2mz",
|
|
"depends": ["Biostrings", "biomaRt", "dplyr", "ggplot2", "httr", "msa", "protr", "readr", "seqinr", "stringr", "testthat", "xml2"]
|
|
},
|
|
"survcomp": {
|
|
"name": "survcomp",
|
|
"version": "1.54.0",
|
|
"sha256": "090dl580cwicn3px1khkhcix25snig0k7phb7z3nzmrbxmp82ygc",
|
|
"depends": ["KernSmooth", "SuppDists", "bootstrap", "ipred", "prodlim", "rmeta", "survival", "survivalROC"]
|
|
},
|
|
"survtype": {
|
|
"name": "survtype",
|
|
"version": "1.20.0",
|
|
"sha256": "0pyyzkxqaa8xbrap1d2ppd4g4i4zxr8frjw0mlq8hw9gf1n94k0l",
|
|
"depends": ["SummarizedExperiment", "clustvarsel", "pheatmap", "survival", "survminer"]
|
|
},
|
|
"sva": {
|
|
"name": "sva",
|
|
"version": "3.52.0",
|
|
"sha256": "07iq894mf5d66cxjl283pcvj1frj56pb15z984d4svk6f5cacg3z",
|
|
"depends": ["BiocParallel", "edgeR", "genefilter", "limma", "matrixStats", "mgcv"]
|
|
},
|
|
"svaNUMT": {
|
|
"name": "svaNUMT",
|
|
"version": "1.10.0",
|
|
"sha256": "15159bxq26w80nc160rk5k48435h6snxmsmynfjiaq3kzv5143pd",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "S4Vectors", "StructuralVariantAnnotation", "VariantAnnotation", "assertthat", "dplyr", "pwalign", "rlang", "rtracklayer", "stringr"]
|
|
},
|
|
"svaRetro": {
|
|
"name": "svaRetro",
|
|
"version": "1.10.0",
|
|
"sha256": "03scsdy5pypir0jqgj38y5hnj82sh21gip5xd8dbqjk9ryb75ays",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "S4Vectors", "StructuralVariantAnnotation", "VariantAnnotation", "assertthat", "dplyr", "rlang", "rtracklayer", "stringr"]
|
|
},
|
|
"swfdr": {
|
|
"name": "swfdr",
|
|
"version": "1.30.0",
|
|
"sha256": "0ld015l7sxl1rmn1p6wi7k8wk3p8y7qad7klb47y23mhwfwhn7cs",
|
|
"depends": []
|
|
},
|
|
"switchBox": {
|
|
"name": "switchBox",
|
|
"version": "1.40.0",
|
|
"sha256": "03535j0hgdgpdks9hc10zkq7kyr4zp8xdp963qny5c4aa4naz7pi",
|
|
"depends": ["gplots", "pROC"]
|
|
},
|
|
"switchde": {
|
|
"name": "switchde",
|
|
"version": "1.30.0",
|
|
"sha256": "033xpkivywvk4rg1gqr0drrhwgp58nlgr3in65c0fxlwd1jd6kpj",
|
|
"depends": ["SingleCellExperiment", "SummarizedExperiment", "dplyr", "ggplot2"]
|
|
},
|
|
"synapsis": {
|
|
"name": "synapsis",
|
|
"version": "1.10.0",
|
|
"sha256": "0w2pagkvnipz6wmz9yhpysiy7ydc7w8cqjifsqzdh771b3ccw0kl",
|
|
"depends": ["EBImage"]
|
|
},
|
|
"synapter": {
|
|
"name": "synapter",
|
|
"version": "2.28.0",
|
|
"sha256": "1imhap1ny0x687qh9s1q9m978hwhhkci0j8i3qfwrvn3ykijlsa7",
|
|
"depends": ["Biobase", "Biostrings", "MSnbase", "RColorBrewer", "cleaver", "lattice", "multtest", "qvalue", "readr", "rmarkdown"]
|
|
},
|
|
"synergyfinder": {
|
|
"name": "synergyfinder",
|
|
"version": "3.12.0",
|
|
"sha256": "02d9615k8fl9bb7hd6f5vz11k9aard8zs880siac2s23pwzivjwn",
|
|
"depends": ["SpatialExtremes", "dplyr", "drc", "furrr", "future", "ggforce", "ggplot2", "ggrepel", "gstat", "kriging", "lattice", "magrittr", "metR", "mice", "nleqslv", "pbapply", "plotly", "purrr", "reshape2", "sp", "stringr", "tidyr", "tidyverse", "vegan"]
|
|
},
|
|
"synlet": {
|
|
"name": "synlet",
|
|
"version": "2.4.0",
|
|
"sha256": "0nfqm2qfavn71k5dhz6x2958yplasnbvjc6mqzh4i237x03184g4",
|
|
"depends": ["RColorBrewer", "RankProd", "data_table", "ggplot2", "magrittr", "patchwork"]
|
|
},
|
|
"syntenet": {
|
|
"name": "syntenet",
|
|
"version": "1.6.0",
|
|
"sha256": "1220hbkmg10ly0i5m6wnqnsa6m2f2xgs85798y9mlcqwxrp5ih35",
|
|
"depends": ["BiocParallel", "Biostrings", "GenomicRanges", "RColorBrewer", "Rcpp", "ggnetwork", "ggplot2", "igraph", "intergraph", "networkD3", "pheatmap", "rlang", "rtracklayer", "testthat"]
|
|
},
|
|
"systemPipeR": {
|
|
"name": "systemPipeR",
|
|
"version": "2.10.0",
|
|
"sha256": "13xxcqy5hhy45zglv6gc86ndmisfkjq4dg55x2j1kw3jqha1brnx",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "Rsamtools", "S4Vectors", "ShortRead", "SummarizedExperiment", "crayon", "ggplot2", "htmlwidgets", "magrittr", "stringr", "yaml"]
|
|
},
|
|
"systemPipeShiny": {
|
|
"name": "systemPipeShiny",
|
|
"version": "1.14.0",
|
|
"sha256": "14wgamxg2jpj3xjlna9x5rd3kpndhxs20gh84acix3pa3ppr8xgf",
|
|
"depends": ["DT", "R6", "RSQLite", "assertthat", "bsplus", "crayon", "dplyr", "drawer", "ggplot2", "glue", "htmltools", "magrittr", "openssl", "plotly", "rlang", "rstudioapi", "shiny", "shinyAce", "shinyFiles", "shinyWidgets", "shinydashboard", "shinydashboardPlus", "shinyjqui", "shinyjs", "shinytoastr", "spsComps", "spsUtil", "stringr", "styler", "tibble", "vroom", "yaml"]
|
|
},
|
|
"systemPipeTools": {
|
|
"name": "systemPipeTools",
|
|
"version": "1.12.0",
|
|
"sha256": "08r0dglqpr638pbssr3l3xcly7mhj0jsq5rrzdnqh5sg4wz11gyj",
|
|
"depends": ["DESeq2", "DT", "GGally", "Rtsne", "SummarizedExperiment", "ape", "dplyr", "ggplot2", "ggrepel", "ggtree", "glmpca", "magrittr", "pheatmap", "plotly", "tibble"]
|
|
},
|
|
"tLOH": {
|
|
"name": "tLOH",
|
|
"version": "1.12.0",
|
|
"sha256": "0r8a0srff8y5ap2zz4kk6302gkb69bgylxggnz704zi3yzvyklv1",
|
|
"depends": ["GenomicRanges", "MatrixGenerics", "VariantAnnotation", "bestNormalize", "data_table", "depmixS4", "dplyr", "ggplot2", "naniar", "purrr", "scales", "stringr"]
|
|
},
|
|
"tRNA": {
|
|
"name": "tRNA",
|
|
"version": "1.22.0",
|
|
"sha256": "0dg4s5kxsdh2j8smqi8vm7yncy9kb79sj8xlvf4wgf3aljarms21",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "IRanges", "Modstrings", "S4Vectors", "Structstrings", "XVector", "ggplot2", "scales", "stringr"]
|
|
},
|
|
"tRNAdbImport": {
|
|
"name": "tRNAdbImport",
|
|
"version": "1.22.0",
|
|
"sha256": "0yvgxxf5d5mh91cmbba66krj6jz5gl1qkgjck9310k4mk7pjfww3",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "Modstrings", "S4Vectors", "Structstrings", "httr2", "stringr", "tRNA", "xml2"]
|
|
},
|
|
"tRNAscanImport": {
|
|
"name": "tRNAscanImport",
|
|
"version": "1.24.0",
|
|
"sha256": "12wn5sdq1miimn31ismzs2w06q3l66l774dbfndw8bx3awhrf7g1",
|
|
"depends": ["BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "Structstrings", "XVector", "rtracklayer", "stringr", "tRNA"]
|
|
},
|
|
"tRanslatome": {
|
|
"name": "tRanslatome",
|
|
"version": "1.42.0",
|
|
"sha256": "0xnr7a7cm7lcvyipjj6p4347yqykpfghz37qxyam5ixplfwlh1cg",
|
|
"depends": ["Biobase", "DESeq2", "GOSemSim", "Heatplus", "RankProd", "anota", "edgeR", "gplots", "limma", "org_Hs_eg_db", "plotrix", "topGO"]
|
|
},
|
|
"tadar": {
|
|
"name": "tadar",
|
|
"version": "1.2.1",
|
|
"sha256": "19f9qzz2hg4j75v6xzma9va0wr3iq8la3dv0qj0aky81ncam4b8z",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "MatrixGenerics", "Rsamtools", "S4Vectors", "VariantAnnotation", "ggplot2", "rlang"]
|
|
},
|
|
"tanggle": {
|
|
"name": "tanggle",
|
|
"version": "1.10.0",
|
|
"sha256": "0dcy2bvim02x9wqd6fxs7562nl8849h13n2q16pcbc67ljhss27m",
|
|
"depends": ["ape", "ggplot2", "ggtree", "phangorn"]
|
|
},
|
|
"target": {
|
|
"name": "target",
|
|
"version": "1.18.0",
|
|
"sha256": "1crqxj8wk66h2jvxnmw5rhdsdfhkd59d2pxw1lf05w7dkd495zfr",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "matrixStats", "shiny"]
|
|
},
|
|
"tenXplore": {
|
|
"name": "tenXplore",
|
|
"version": "1.26.2",
|
|
"sha256": "088vs1pcq92qgismxz886nmciharsvdnj0h2pbs40n391icbp7if",
|
|
"depends": ["AnnotationDbi", "BiocFileCache", "SummarizedExperiment", "matrixStats", "ontoProc", "org_Mm_eg_db", "shiny"]
|
|
},
|
|
"ternarynet": {
|
|
"name": "ternarynet",
|
|
"version": "1.48.0",
|
|
"sha256": "1f431kkyhazw4kxnfhhk0jb9gkfp7llpm054rv44if328bbi931h",
|
|
"depends": ["BiocParallel", "igraph"]
|
|
},
|
|
"terraTCGAdata": {
|
|
"name": "terraTCGAdata",
|
|
"version": "1.8.0",
|
|
"sha256": "18i933ndja1pa4iql96fvx2brjmcvvirlp048hjxvkapm0bhsm19",
|
|
"depends": ["AnVIL", "BiocFileCache", "GenomicRanges", "MultiAssayExperiment", "RaggedExperiment", "S4Vectors", "TCGAutils", "dplyr", "readr", "tidyr"]
|
|
},
|
|
"tidyCoverage": {
|
|
"name": "tidyCoverage",
|
|
"version": "1.0.0",
|
|
"sha256": "150q5qwifni2d2jvx1k3c0cq5n2k1s33yps8v5d6ksa3qs510p4s",
|
|
"depends": ["BiocIO", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "cli", "dplyr", "fansi", "pillar", "purrr", "rlang", "rtracklayer", "tidyr", "vctrs"]
|
|
},
|
|
"tidySingleCellExperiment": {
|
|
"name": "tidySingleCellExperiment",
|
|
"version": "1.14.0",
|
|
"sha256": "1rvc0576ajxx7njyiyh2ql85an4dn9v8v4q7g8gfdgd9jg5v4hmz",
|
|
"depends": ["Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "cli", "dplyr", "ellipsis", "fansi", "ggplot2", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "rlang", "stringr", "tibble", "tidyr", "tidyselect", "ttservice", "vctrs"]
|
|
},
|
|
"tidySpatialExperiment": {
|
|
"name": "tidySpatialExperiment",
|
|
"version": "1.0.0",
|
|
"sha256": "0a2bramm53dvl7qib18z7s8zrfjprkrg6zzj5q7z4jf5smj7szzf",
|
|
"depends": ["BiocGenerics", "Matrix", "S4Vectors", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "cli", "dplyr", "fansi", "ggplot2", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "rlang", "stringr", "tibble", "tidySingleCellExperiment", "tidyr", "tidyselect", "ttservice", "vctrs"]
|
|
},
|
|
"tidySummarizedExperiment": {
|
|
"name": "tidySummarizedExperiment",
|
|
"version": "1.14.0",
|
|
"sha256": "0bcvna28shr27pdzi1n2g6bldqrakkwn0wh7ld39wbn439awshr9",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "cli", "dplyr", "ellipsis", "fansi", "ggplot2", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "rlang", "stringr", "tibble", "tidyr", "tidyselect", "ttservice", "vctrs"]
|
|
},
|
|
"tidybulk": {
|
|
"name": "tidybulk",
|
|
"version": "1.16.0",
|
|
"sha256": "1ij4x2fqcpdkdl62kwjhk3w19m7vwq8m3bglhsxz7pkzy49cfifx",
|
|
"depends": ["GenomicRanges", "Matrix", "S4Vectors", "SummarizedExperiment", "crayon", "dplyr", "lifecycle", "magrittr", "preprocessCore", "purrr", "readr", "rlang", "scales", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "ttservice"]
|
|
},
|
|
"tidyomics": {
|
|
"name": "tidyomics",
|
|
"version": "1.0.0",
|
|
"sha256": "08d2bkaqya090y93wg8cj36bbqbiy62p9swiz9ci9z4055sv900y",
|
|
"depends": ["cli", "nullranges", "plyranges", "purrr", "rlang", "stringr", "tidySingleCellExperiment", "tidySummarizedExperiment", "tidybulk", "tidyseurat"]
|
|
},
|
|
"tigre": {
|
|
"name": "tigre",
|
|
"version": "1.58.0",
|
|
"sha256": "1gdfiga7m4zdsr8vj8anlkj1jfdrlzhsik36jdgi4f92pyyllgwx",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "RSQLite", "annotate", "gplots"]
|
|
},
|
|
"tilingArray": {
|
|
"name": "tilingArray",
|
|
"version": "1.82.0",
|
|
"sha256": "1408275gvfilc2k8sfsja8bm5fdgnblf2sf5wdd3if51qi61clb0",
|
|
"depends": ["Biobase", "RColorBrewer", "affy", "genefilter", "pixmap", "strucchange", "vsn"]
|
|
},
|
|
"timeOmics": {
|
|
"name": "timeOmics",
|
|
"version": "1.16.0",
|
|
"sha256": "12qxipaqmkvfb6lvbl40v9fb0vink4jgxlx9kg9kg2sd9kb7qrav",
|
|
"depends": ["checkmate", "dplyr", "ggplot2", "ggrepel", "lmtest", "magrittr", "mixOmics", "plyr", "purrr", "stringr", "tibble", "tidyr"]
|
|
},
|
|
"timecourse": {
|
|
"name": "timecourse",
|
|
"version": "1.76.0",
|
|
"sha256": "05q6vw76hhi4frpf4vivq1jxkh99xq44vw2p5gz4zgcinsc58yql",
|
|
"depends": ["Biobase", "MASS", "limma", "marray"]
|
|
},
|
|
"timescape": {
|
|
"name": "timescape",
|
|
"version": "1.28.0",
|
|
"sha256": "1xcdx61gv0vvzdl04nfp7kbp6qxbkfmh88pvdz47jmkcy9ap8zmm",
|
|
"depends": ["dplyr", "gtools", "htmlwidgets", "jsonlite", "stringr"]
|
|
},
|
|
"tkWidgets": {
|
|
"name": "tkWidgets",
|
|
"version": "1.82.0",
|
|
"sha256": "0k1d5r306mbry0h7yqp246i13adxlmxl2vhwdsfgh29v8qkg1szl",
|
|
"depends": ["DynDoc", "widgetTools"]
|
|
},
|
|
"tomoda": {
|
|
"name": "tomoda",
|
|
"version": "1.14.0",
|
|
"sha256": "0cx4153sknl0prpdm12y6n44kg10ib8b7qk3102pvgv9mz4xgrbv",
|
|
"depends": ["RColorBrewer", "Rtsne", "SummarizedExperiment", "ggplot2", "ggrepel", "reshape2", "umap"]
|
|
},
|
|
"tomoseqr": {
|
|
"name": "tomoseqr",
|
|
"version": "1.8.0",
|
|
"sha256": "14x665zaljr448gdb84d0y1hlqih7n9z2dy052y4ay22l10f8886",
|
|
"depends": ["BiocFileCache", "animation", "dplyr", "ggplot2", "plotly", "purrr", "readr", "shiny", "stringr", "tibble"]
|
|
},
|
|
"topGO": {
|
|
"name": "topGO",
|
|
"version": "2.56.0",
|
|
"sha256": "0ly4rai3na88dnfizsi60r6py0qmf0pw95b0hprfkvzpjyd72p75",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "GO_db", "SparseM", "graph", "lattice", "matrixStats"]
|
|
},
|
|
"topconfects": {
|
|
"name": "topconfects",
|
|
"version": "1.20.0",
|
|
"sha256": "1jcmnxf5sazw7xg8r39m059z2vai03nr0kadd8dfcvn6cfaqmvbg",
|
|
"depends": ["assertthat", "ggplot2"]
|
|
},
|
|
"topdownr": {
|
|
"name": "topdownr",
|
|
"version": "1.26.0",
|
|
"sha256": "1axqyjlp6386shcw95mg0ljj12683ix03yk5bcxr2bqd36csfa6y",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "MSnbase", "Matrix", "PSMatch", "ProtGenerics", "S4Vectors", "ggplot2", "mzR"]
|
|
},
|
|
"tpSVG": {
|
|
"name": "tpSVG",
|
|
"version": "1.0.0",
|
|
"sha256": "135w2w6j3cgfrkfkzmmy40ii10zp32r7xjc0pg07h2gm0hdz5yj0",
|
|
"depends": ["BiocParallel", "MatrixGenerics", "SingleCellExperiment", "SpatialExperiment", "SummarizedExperiment", "mgcv"]
|
|
},
|
|
"trackViewer": {
|
|
"name": "trackViewer",
|
|
"version": "1.40.0",
|
|
"sha256": "01m0jwig3l6dfhd3w5aq4sx2krsipjg5jjxa78kalfrzrm6k05s4",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "InteractionSet", "Rsamtools", "S4Vectors", "grImport", "htmlwidgets", "igraph", "plotrix", "rhdf5", "rtracklayer", "scales", "strawr", "txdbmaker"]
|
|
},
|
|
"tracktables": {
|
|
"name": "tracktables",
|
|
"version": "1.38.0",
|
|
"sha256": "1rfpb13sd2rqhxkywif58fm2l8ch664ga149y1nxwf409hbqb81w",
|
|
"depends": ["GenomicRanges", "IRanges", "RColorBrewer", "Rsamtools", "XML", "XVector", "stringr", "tractor_base"]
|
|
},
|
|
"tradeSeq": {
|
|
"name": "tradeSeq",
|
|
"version": "1.18.0",
|
|
"sha256": "1kgvvvwvj3dgb2wik3y8j44ynda94bi05vvmiwlayrypqprwi1c1",
|
|
"depends": ["Biobase", "BiocParallel", "MASS", "Matrix", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "TrajectoryUtils", "edgeR", "ggplot2", "igraph", "magrittr", "matrixStats", "mgcv", "pbapply", "princurve", "slingshot", "tibble", "viridis"]
|
|
},
|
|
"transcriptR": {
|
|
"name": "transcriptR",
|
|
"version": "1.32.0",
|
|
"sha256": "1lx11dyr8q4yd57l7rj0788488amhiiahfml2m69554hk94cd46i",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "caret", "chipseq", "e1071", "ggplot2", "pROC", "reshape2", "rtracklayer"]
|
|
},
|
|
"transcriptogramer": {
|
|
"name": "transcriptogramer",
|
|
"version": "1.26.0",
|
|
"sha256": "0n44im93a72sihivlxn5x2k3s412b91ixqamc0wlk57vw0ppycm6",
|
|
"depends": ["RedeR", "biomaRt", "data_table", "doSNOW", "foreach", "ggplot2", "igraph", "limma", "progress", "snow", "tidyr", "topGO"]
|
|
},
|
|
"transformGamPoi": {
|
|
"name": "transformGamPoi",
|
|
"version": "1.10.0",
|
|
"sha256": "09z5d72zk6lnhjvfffpylgkk6w73wrlcasr8agy7ydy1b80cj36c",
|
|
"depends": ["DelayedArray", "HDF5Array", "Matrix", "MatrixGenerics", "Rcpp", "SummarizedExperiment", "glmGamPoi"]
|
|
},
|
|
"transite": {
|
|
"name": "transite",
|
|
"version": "1.22.0",
|
|
"sha256": "15r8q0j7475ccq592fiqvcxkggb8zkg6lq3zmz65jljfdggj6kn4",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicRanges", "Rcpp", "TFMPvalue", "dplyr", "ggplot2", "gridExtra", "scales"]
|
|
},
|
|
"transmogR": {
|
|
"name": "transmogR",
|
|
"version": "1.0.0",
|
|
"sha256": "1531h4i6jn25r451ndf7jjscfbzs1k7477v0cn0rrr5hay8i2z3s",
|
|
"depends": ["BSgenome", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "ggplot2", "rlang", "scales"]
|
|
},
|
|
"transomics2cytoscape": {
|
|
"name": "transomics2cytoscape",
|
|
"version": "1.14.0",
|
|
"sha256": "1f7qdymlgqh4la1rhlk5s580ka8p4f8ravm19i02ndx50jlnq12q",
|
|
"depends": ["KEGGREST", "RCy3", "dplyr", "pbapply", "purrr", "tibble"]
|
|
},
|
|
"traseR": {
|
|
"name": "traseR",
|
|
"version": "1.34.0",
|
|
"sha256": "0v1w73s4b5zs863mdb6pwr2h9wq3wsbwqxbihig3sl6vc7i5v7da",
|
|
"depends": ["BSgenome_Hsapiens_UCSC_hg19", "GenomicRanges", "IRanges"]
|
|
},
|
|
"traviz": {
|
|
"name": "traviz",
|
|
"version": "1.10.0",
|
|
"sha256": "1jjdfl8xvzlr31w74j12s5pdg5b1yylg1i30n804p9mqyx11g5sc",
|
|
"depends": ["Biobase", "RColorBrewer", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "mgcv", "princurve", "rgl", "slingshot", "viridis"]
|
|
},
|
|
"treeclimbR": {
|
|
"name": "treeclimbR",
|
|
"version": "1.0.0",
|
|
"sha256": "1ynrc06f1dh1vaa24j25naydvj4lvygcv89ssz5gv0xpmr0ydlc1",
|
|
"depends": ["S4Vectors", "SummarizedExperiment", "TreeSummarizedExperiment", "ape", "diffcyt", "dirmult", "dplyr", "edgeR", "ggnewscale", "ggplot2", "ggtree", "rlang", "tibble", "tidyr", "viridis"]
|
|
},
|
|
"treeio": {
|
|
"name": "treeio",
|
|
"version": "1.28.0",
|
|
"sha256": "0xfjq13yirfz7dzzlf2m60lk8xb3qh6k5hr66ygvjnm716x3vyh1",
|
|
"depends": ["ape", "dplyr", "jsonlite", "magrittr", "rlang", "tibble", "tidytree", "yulab_utils"]
|
|
},
|
|
"treekoR": {
|
|
"name": "treekoR",
|
|
"version": "1.12.0",
|
|
"sha256": "02mzd9ay9fij2qr9dkrg72h7yw9jpjmqx4gz0hsjpb03akc1npqw",
|
|
"depends": ["SingleCellExperiment", "ape", "data_table", "diffcyt", "dplyr", "edgeR", "ggiraph", "ggplot2", "ggtree", "hopach", "lme4", "multcomp", "patchwork", "tidyr"]
|
|
},
|
|
"tricycle": {
|
|
"name": "tricycle",
|
|
"version": "1.12.0",
|
|
"sha256": "11928pcd8xzmll28m0ihi3rasc4w1i0fshn4bh9n2lyigkr5ayi4",
|
|
"depends": ["AnnotationDbi", "GenomicRanges", "IRanges", "RColorBrewer", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circular", "dplyr", "ggnewscale", "ggplot2", "scater", "scattermore"]
|
|
},
|
|
"trigger": {
|
|
"name": "trigger",
|
|
"version": "1.50.0",
|
|
"sha256": "1l3ln40r45rhbw8abk8l5xqighpfy3qk17830wk34ip0jzvvshqi",
|
|
"depends": ["corpcor", "qtl", "qvalue", "sva"]
|
|
},
|
|
"trio": {
|
|
"name": "trio",
|
|
"version": "3.42.0",
|
|
"sha256": "166pnyzjrahcx0zhmclxdawyhpvr8am0da8il3wm1bs6clp7af94",
|
|
"depends": ["LogicReg", "siggenes", "survival"]
|
|
},
|
|
"triplex": {
|
|
"name": "triplex",
|
|
"version": "1.44.0",
|
|
"sha256": "19xvhdwik9crz6w5cjfwsvwn42wkari3d360lmjms128qn266hbx",
|
|
"depends": ["Biostrings", "GenomicRanges", "IRanges", "S4Vectors", "XVector"]
|
|
},
|
|
"tripr": {
|
|
"name": "tripr",
|
|
"version": "1.10.0",
|
|
"sha256": "0lh2qlqi6rxq4v5cw4qr2syyjig7iy6z3pc0d6gpr4lbhwcm50d5",
|
|
"depends": ["DT", "RColorBrewer", "config", "data_table", "dplyr", "golem", "gridExtra", "plot3D", "plotly", "plyr", "shiny", "shinyBS", "shinyFiles", "shinyjs", "stringdist", "stringr"]
|
|
},
|
|
"ttgsea": {
|
|
"name": "ttgsea",
|
|
"version": "1.12.0",
|
|
"sha256": "1j09ircbzpvx661yrsnz7b6hxgsc0snm3q6gi72hcyjc9xgx46zs",
|
|
"depends": ["DiagrammeR", "data_table", "keras", "purrr", "stopwords", "text2vec", "textstem", "tm", "tokenizers"]
|
|
},
|
|
"tweeDEseq": {
|
|
"name": "tweeDEseq",
|
|
"version": "1.50.0",
|
|
"sha256": "0mmrp0x64k1cd0n7qqrpr191n57hciq75aw3gvfrplcfi75xb7q3",
|
|
"depends": ["MASS", "Rcpp", "cqn", "edgeR", "limma"]
|
|
},
|
|
"twilight": {
|
|
"name": "twilight",
|
|
"version": "1.80.0",
|
|
"sha256": "0r5nfr5r88xyvcrlzv8cmlnq5gcf98nqn3p028zc8dffslm6cbsq",
|
|
"depends": ["Biobase"]
|
|
},
|
|
"twoddpcr": {
|
|
"name": "twoddpcr",
|
|
"version": "1.28.0",
|
|
"sha256": "13if809c4nxf5cprps9p9w6z1r3xxjq556315wbkyh0pw724nki0",
|
|
"depends": ["RColorBrewer", "S4Vectors", "class", "ggplot2", "hexbin", "scales", "shiny"]
|
|
},
|
|
"txcutr": {
|
|
"name": "txcutr",
|
|
"version": "1.10.0",
|
|
"sha256": "165yfhmw8j91bx0x7kasxyiwdiy7yxzzjg4vlyic0bf2f3xvyn1g",
|
|
"depends": ["AnnotationDbi", "BiocGenerics", "BiocParallel", "Biostrings", "GenomicFeatures", "GenomicRanges", "IRanges", "S4Vectors", "rtracklayer", "txdbmaker"]
|
|
},
|
|
"txdbmaker": {
|
|
"name": "txdbmaker",
|
|
"version": "1.0.1",
|
|
"sha256": "1nl7lr0x0kicd44gvwrdslcnnlmqaf57rgp1gb22yvz3lfzjziqi",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocIO", "DBI", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "RSQLite", "S4Vectors", "UCSC_utils", "biomaRt", "httr", "rjson", "rtracklayer"]
|
|
},
|
|
"tximeta": {
|
|
"name": "tximeta",
|
|
"version": "1.22.1",
|
|
"sha256": "0lmkxl7zlp6z4i32jyy914kiwacnz89jnd2kqma81mq81r389p06",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "BiocFileCache", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "Matrix", "S4Vectors", "SummarizedExperiment", "ensembldb", "jsonlite", "tibble", "txdbmaker", "tximport"]
|
|
},
|
|
"tximport": {
|
|
"name": "tximport",
|
|
"version": "1.32.0",
|
|
"sha256": "0wayib05k976wivf9xgbfz5mfvi5hmxj3wm6zw031bj4w8dkc1v6",
|
|
"depends": []
|
|
},
|
|
"uSORT": {
|
|
"name": "uSORT",
|
|
"version": "1.30.0",
|
|
"sha256": "04k0763dykakv03gxvlwsp6qlg6lpzd5512p5rdq2v5dk19scvm1",
|
|
"depends": ["Biobase", "BiocGenerics", "Matrix", "RANN", "RSpectra", "VGAM", "cluster", "fpc", "gplots", "igraph", "monocle", "plyr"]
|
|
},
|
|
"uncoverappLib": {
|
|
"name": "uncoverappLib",
|
|
"version": "1.14.0",
|
|
"sha256": "17p2aqpg3q6yqplw2haazm1hhr6s0nwhghcvn3j9128n5pg2j58x",
|
|
"depends": ["BiocFileCache", "DT", "EnsDb_Hsapiens_v75", "EnsDb_Hsapiens_v86", "GenomicRanges", "Gviz", "Homo_sapiens", "OrganismDbi", "Rsamtools", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene", "condformat", "markdown", "openxlsx", "org_Hs_eg_db", "processx", "rappdirs", "rlist", "shiny", "shinyBS", "shinyWidgets", "shinycssloaders", "shinyjs", "stringr"]
|
|
},
|
|
"universalmotif": {
|
|
"name": "universalmotif",
|
|
"version": "1.22.1",
|
|
"sha256": "0nb2xc0rw9k6nr7bgf4ip33g2cs5vnhy55ms6zkwsnd30hi69wyy",
|
|
"depends": ["BiocGenerics", "Biostrings", "IRanges", "MASS", "MatrixGenerics", "Rcpp", "RcppThread", "S4Vectors", "ggplot2", "rlang", "yaml"]
|
|
},
|
|
"updateObject": {
|
|
"name": "updateObject",
|
|
"version": "1.8.0",
|
|
"sha256": "151nma7yyhk8s67bqim6jn86p85zdq7hj0xvvpnsl78bacncca8c",
|
|
"depends": ["BiocGenerics", "S4Vectors", "digest"]
|
|
},
|
|
"variancePartition": {
|
|
"name": "variancePartition",
|
|
"version": "1.34.0",
|
|
"sha256": "00hrizpx05jfh7yrab6na10zkahm8ibrbxy4pa4dcldw65klqmn9",
|
|
"depends": ["Biobase", "BiocParallel", "MASS", "Matrix", "Rdpack", "RhpcBLASctl", "aod", "corpcor", "fANCOVA", "ggplot2", "gplots", "iterators", "limma", "lme4", "lmerTest", "matrixStats", "pbkrtest", "remaCor", "reshape2", "rlang", "scales"]
|
|
},
|
|
"vbmp": {
|
|
"name": "vbmp",
|
|
"version": "1.72.0",
|
|
"sha256": "0a21jpvg6jjv28gx30yrvm7wsc194jsdsxh0vhgk8j9rjlmlfp2y",
|
|
"depends": []
|
|
},
|
|
"velociraptor": {
|
|
"name": "velociraptor",
|
|
"version": "1.14.3",
|
|
"sha256": "0i8kzj79qszqaq6ynij006r80g2jacm4pmjkvv1h36mxp3a6z559",
|
|
"depends": ["BiocGenerics", "BiocParallel", "BiocSingular", "DelayedArray", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "basilisk", "reticulate", "scuttle", "zellkonverter"]
|
|
},
|
|
"veloviz": {
|
|
"name": "veloviz",
|
|
"version": "1.10.0",
|
|
"sha256": "0bni9ykffsa4zazycaki74xxwps40ngsrvq32bdr4anyhya2nk1v",
|
|
"depends": ["Matrix", "RSpectra", "Rcpp", "igraph", "mgcv"]
|
|
},
|
|
"vidger": {
|
|
"name": "vidger",
|
|
"version": "1.24.0",
|
|
"sha256": "1ladsgxqmmff7rw6w3x8jyxba4mdk7bb4f4wgimwfgvyjmygsaqr",
|
|
"depends": ["Biobase", "DESeq2", "GGally", "RColorBrewer", "SummarizedExperiment", "edgeR", "ggplot2", "ggrepel", "knitr", "rmarkdown", "scales", "tidyr"]
|
|
},
|
|
"viper": {
|
|
"name": "viper",
|
|
"version": "1.38.0",
|
|
"sha256": "00cl6lbi56dbd8dilg0iczca87wr3572vq7i352mgfdinlw7fcyk",
|
|
"depends": ["Biobase", "KernSmooth", "e1071", "mixtools"]
|
|
},
|
|
"vissE": {
|
|
"name": "vissE",
|
|
"version": "1.12.0",
|
|
"sha256": "1bw74vjag4g90d2s29w5j51dd30xqp6k6x6vwb0ihrxfvadns5dx",
|
|
"depends": ["GSEABase", "RColorBrewer", "ggforce", "ggplot2", "ggraph", "ggrepel", "ggwordcloud", "igraph", "msigdb", "plyr", "reshape2", "scales", "scico", "textstem", "tidygraph", "tm"]
|
|
},
|
|
"vsclust": {
|
|
"name": "vsclust",
|
|
"version": "1.6.0",
|
|
"sha256": "0kb63am4aa6gmlpbczdbmxc7vwnmnnkd78ql6nizd9sfixdmiqm5",
|
|
"depends": ["MultiAssayExperiment", "Rcpp", "limma", "matrixStats", "qvalue", "shiny"]
|
|
},
|
|
"vsn": {
|
|
"name": "vsn",
|
|
"version": "3.72.0",
|
|
"sha256": "1r6cd92d4xlx4zdyy1sfaxicjf4q3arflmswpdkckkc4h9c6zf8m",
|
|
"depends": ["Biobase", "affy", "ggplot2", "lattice", "limma"]
|
|
},
|
|
"vtpnet": {
|
|
"name": "vtpnet",
|
|
"version": "0.44.0",
|
|
"sha256": "1fi4yjh7nvrq9fzba771i32p6qhq3cl7c9sil1hpc9l4k9bxfdfp",
|
|
"depends": ["GenomicRanges", "doParallel", "foreach", "graph", "gwascat"]
|
|
},
|
|
"vulcan": {
|
|
"name": "vulcan",
|
|
"version": "1.26.0",
|
|
"sha256": "1fimj4rbrw6wy1kl6is49v33y6c1s3n9nkanpqibkgk4g3cljxfa",
|
|
"depends": ["Biobase", "ChIPpeakAnno", "DESeq2", "DiffBind", "GenomicRanges", "S4Vectors", "TxDb_Hsapiens_UCSC_hg19_knownGene", "caTools", "csaw", "gplots", "locfit", "viper", "wordcloud", "zoo"]
|
|
},
|
|
"waddR": {
|
|
"name": "waddR",
|
|
"version": "1.18.0",
|
|
"sha256": "160v6qqcx3fn657p7blq261nqclww2wic3gp0k855d3kx4i12i5l",
|
|
"depends": ["BiocFileCache", "BiocParallel", "Rcpp", "RcppArmadillo", "SingleCellExperiment", "arm", "eva"]
|
|
},
|
|
"wateRmelon": {
|
|
"name": "wateRmelon",
|
|
"version": "2.10.0",
|
|
"sha256": "19zlv9aglllsjq3jcnlw994bkanjdq0ib46k7wjsig04cx4apz1v",
|
|
"depends": ["Biobase", "IlluminaHumanMethylation450kanno_ilmn12_hg19", "ROC", "illuminaio", "limma", "lumi", "matrixStats", "methylumi"]
|
|
},
|
|
"wavClusteR": {
|
|
"name": "wavClusteR",
|
|
"version": "2.38.0",
|
|
"sha256": "0yr4jfaxs253xg5q0kds8fm97kqacx67pw1c80yx2w79v7nqskgv",
|
|
"depends": ["BiocGenerics", "Biostrings", "GenomicFeatures", "GenomicRanges", "Hmisc", "IRanges", "Rsamtools", "S4Vectors", "foreach", "ggplot2", "mclust", "rtracklayer", "seqinr", "stringr"]
|
|
},
|
|
"weaver": {
|
|
"name": "weaver",
|
|
"version": "1.70.0",
|
|
"sha256": "08k5pkd16n9jyf45y8wh8lzk7dwkkpiai87fnrxg440qjb91pzsm",
|
|
"depends": ["codetools", "digest"]
|
|
},
|
|
"webbioc": {
|
|
"name": "webbioc",
|
|
"version": "1.76.0",
|
|
"sha256": "1ws4w2kf514adk50sjadgasm7z1xvklcb8s243m12fvlg63dia9i",
|
|
"depends": ["Biobase", "BiocManager", "affy", "annaffy", "gcrma", "multtest", "qvalue", "vsn"]
|
|
},
|
|
"weitrix": {
|
|
"name": "weitrix",
|
|
"version": "1.16.0",
|
|
"sha256": "01jp94k2qlxbci1kidx4lnxkz0bf4vaj5p31c4brcmgrzv0a1pz4",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Ckmeans_1d_dp", "DelayedArray", "DelayedMatrixStats", "RhpcBLASctl", "S4Vectors", "SummarizedExperiment", "assertthat", "dplyr", "ggplot2", "glm2", "limma", "purrr", "reshape2", "rlang", "scales", "topconfects"]
|
|
},
|
|
"widgetTools": {
|
|
"name": "widgetTools",
|
|
"version": "1.82.0",
|
|
"sha256": "0knszrfapndnjzv5948qbfsjamlf7g04yry7yx294l8iwvwip6qv",
|
|
"depends": []
|
|
},
|
|
"wiggleplotr": {
|
|
"name": "wiggleplotr",
|
|
"version": "1.28.0",
|
|
"sha256": "1px7rgvaj6kks6fp7yqsqjwy4knlzgllzxsiimv8nikmbd57dmi0",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "S4Vectors", "assertthat", "cowplot", "dplyr", "ggplot2", "purrr", "rtracklayer"]
|
|
},
|
|
"wpm": {
|
|
"name": "wpm",
|
|
"version": "1.14.0",
|
|
"sha256": "1623q58fjxnx1632fn5c5rhx0zpglbjpp7zqp15f2gch01ac0xdy",
|
|
"depends": ["Biobase", "DT", "RColorBrewer", "SummarizedExperiment", "cli", "config", "dplyr", "ggplot2", "golem", "logging", "rlang", "shiny", "shinyWidgets", "shinycustomloader", "shinydashboard", "stringr"]
|
|
},
|
|
"wppi": {
|
|
"name": "wppi",
|
|
"version": "1.12.0",
|
|
"sha256": "1mvr5bpsng87yl1bhd22h45830vw3sla1ysnr29px13if2q5ylmy",
|
|
"depends": ["Matrix", "OmnipathR", "RCurl", "dplyr", "igraph", "logger", "magrittr", "progress", "purrr", "rlang", "tibble", "tidyr"]
|
|
},
|
|
"xcms": {
|
|
"name": "xcms",
|
|
"version": "4.2.2",
|
|
"sha256": "1zk9l4ll3047fj0rngvjka2hkg2by26n2h3xm1iyvfiw5068y74y",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "IRanges", "MSnbase", "MassSpecWavelet", "MetaboCoreUtils", "MsCoreUtils", "MsExperiment", "MsFeatures", "ProtGenerics", "RColorBrewer", "S4Vectors", "Spectra", "SummarizedExperiment", "jsonlite", "lattice", "mzR", "progress"]
|
|
},
|
|
"xcore": {
|
|
"name": "xcore",
|
|
"version": "1.8.0",
|
|
"sha256": "04156svl1cjbhy51d7fbgdilp832wfifg37yr9civ829iyi79fha",
|
|
"depends": ["DelayedArray", "GenomicRanges", "IRanges", "Matrix", "MultiAssayExperiment", "S4Vectors", "edgeR", "foreach", "glmnet", "iterators", "magrittr"]
|
|
},
|
|
"xmapbridge": {
|
|
"name": "xmapbridge",
|
|
"version": "1.62.0",
|
|
"sha256": "0laahd3v5m313q1iq259aikgqf7zlmpxyxhws2pr7vg97g37bbhs",
|
|
"depends": []
|
|
},
|
|
"yamss": {
|
|
"name": "yamss",
|
|
"version": "1.30.0",
|
|
"sha256": "0l9wqijwlq1gwybj2fy6jwgq6ja1mvx8yfdv174g5mjflx8nmc06",
|
|
"depends": ["BiocGenerics", "EBImage", "IRanges", "Matrix", "S4Vectors", "SummarizedExperiment", "data_table", "limma", "mzR"]
|
|
},
|
|
"yarn": {
|
|
"name": "yarn",
|
|
"version": "1.30.0",
|
|
"sha256": "1r0dj65i8xg1yb6x7ggb3s40hvzbh596k2g9bxblsbl18z867ydp",
|
|
"depends": ["Biobase", "RColorBrewer", "biomaRt", "downloader", "edgeR", "gplots", "limma", "matrixStats", "preprocessCore", "quantro", "readr"]
|
|
},
|
|
"zFPKM": {
|
|
"name": "zFPKM",
|
|
"version": "1.26.0",
|
|
"sha256": "1pgmw41xdq9gd2shc6kawgxz9sw1ydlgs0p35k99k2v50f86r2wy",
|
|
"depends": ["SummarizedExperiment", "checkmate", "dplyr", "ggplot2", "tidyr"]
|
|
},
|
|
"zellkonverter": {
|
|
"name": "zellkonverter",
|
|
"version": "1.14.1",
|
|
"sha256": "1fyy3v1papg46cclk5fg8iqmg0671ccr82alvv41hk5d85ck04aq",
|
|
"depends": ["DelayedArray", "Matrix", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "basilisk", "cli", "reticulate"]
|
|
},
|
|
"zenith": {
|
|
"name": "zenith",
|
|
"version": "1.6.0",
|
|
"sha256": "14mj5flig4f0s3qgny26wj8l50d5f8bdp66gnh83wsqnln784x8m",
|
|
"depends": ["EnrichmentBrowser", "GSEABase", "Rdpack", "Rfast", "ggplot2", "limma", "msigdbr", "progress", "reshape2", "tidyr", "variancePartition"]
|
|
},
|
|
"zinbwave": {
|
|
"name": "zinbwave",
|
|
"version": "1.26.0",
|
|
"sha256": "07zlvzfs1c4gcj9hwgqbjhgbrffi301620chrf5lvzly4v7hafwi",
|
|
"depends": ["BiocParallel", "Matrix", "SingleCellExperiment", "SummarizedExperiment", "edgeR", "genefilter", "softImpute"]
|
|
},
|
|
"zlibbioc": {
|
|
"name": "zlibbioc",
|
|
"version": "1.50.0",
|
|
"sha256": "155q6983xjdjpq445lpg5n9gzf8gr18nll6dmjk7jwdq7fdxb602",
|
|
"depends": []
|
|
},
|
|
"ABAEnrichment": {
|
|
"name": "ABAEnrichment",
|
|
"version": "1.24.0",
|
|
"sha256": "1sp3f72rzlr822dxx42bswynrwwfx6f520hdhfdikqp13p2y4044",
|
|
"depends": ["ABAData", "data_table", "GOfuncR", "gplots", "gtools", "Rcpp"],
|
|
"broken": true
|
|
},
|
|
"ALPS": {
|
|
"name": "ALPS",
|
|
"version": "1.5.0",
|
|
"sha256": "1aydvzc6x0871iasij68xqdlhjyg69qbqxm0qh1q52w8gj2nyq3p",
|
|
"depends": ["assertthat", "BiocParallel", "ChIPseeker", "corrplot", "data_table", "dplyr", "genefilter", "GenomicRanges", "GGally", "gghalves", "ggplot2", "ggseqlogo", "Gviz", "magrittr", "org_Hs_eg_db", "plyr", "reshape2", "rtracklayer", "stringr", "tibble", "tidyr", "TxDb_Hsapiens_UCSC_hg19_knownGene", "TxDb_Hsapiens_UCSC_hg38_knownGene"],
|
|
"broken": true
|
|
},
|
|
"ASpediaFI": {
|
|
"name": "ASpediaFI",
|
|
"version": "1.11.0",
|
|
"sha256": "13jny6ca8hdf269z37baaggfs7jss00ln09apn42pj411g3p7nms",
|
|
"depends": ["BiocParallel", "biomaRt", "dplyr", "DRaWR", "e1071", "fgsea", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "ggplot2", "Gviz", "igraph", "IRanges", "IVAS", "limma", "Matrix", "reshape2", "ROCR", "Rsamtools", "rtracklayer", "S4Vectors", "scales", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"AffyCompatible": {
|
|
"name": "AffyCompatible",
|
|
"version": "1.58.0",
|
|
"sha256": "1bg7iqasvfsgd9x3ykgpblqnz1q06g3ifmzj4jf2kn8kxj63wfbl",
|
|
"depends": ["Biostrings", "RCurl", "XML"],
|
|
"broken": true
|
|
},
|
|
"ArrayExpressHTS": {
|
|
"name": "ArrayExpressHTS",
|
|
"version": "1.47.0",
|
|
"sha256": "0fndc7xifzj2wq8si8q8zjjkly5ckgr28jrm3m887s7kivbvjzvv",
|
|
"depends": ["Biobase", "BiocGenerics", "biomaRt", "Biostrings", "bitops", "edgeR", "GenomicRanges", "Hmisc", "IRanges", "R2HTML", "RColorBrewer", "Rhtslib", "rJava", "Rsamtools", "sampling", "sendmailR", "ShortRead", "snow", "svMisc", "XML"],
|
|
"broken": true
|
|
},
|
|
"Autotuner": {
|
|
"name": "Autotuner",
|
|
"version": "1.7.0",
|
|
"sha256": "0k07gs6bnxs0894iqi1lhk96mifjcdf68bv4q9fjv50nzqpzqd8l",
|
|
"depends": ["assertthat", "Biobase", "cluster", "entropy", "MSnbase", "mzR", "RColorBrewer", "scales"],
|
|
"broken": true
|
|
},
|
|
"BAC": {
|
|
"name": "BAC",
|
|
"version": "1.58.0",
|
|
"sha256": "00dkhns9n1x4wmlxjcw75h7iwwk37zlv1c2fi0g1mmsw1xvdjzp6",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"BDMMAcorrect": {
|
|
"name": "BDMMAcorrect",
|
|
"version": "1.18.1",
|
|
"sha256": "17lsgl5mczfk2flkrclxhsqkkpr6mncccywm68l0z02pi5xhd8j7",
|
|
"depends": ["ape", "ellipse", "ggplot2", "Rcpp", "RcppArmadillo", "RcppEigen", "SummarizedExperiment", "vegan"],
|
|
"broken": true
|
|
},
|
|
"BGmix": {
|
|
"name": "BGmix",
|
|
"version": "1.59.0",
|
|
"sha256": "16fzgxcy4sk0kd67vzdxqz81s84dvh4bqss9cbl9bn6vhpfsnfyf",
|
|
"depends": ["KernSmooth"],
|
|
"broken": true
|
|
},
|
|
"BRGenomics": {
|
|
"name": "BRGenomics",
|
|
"version": "1.14.1",
|
|
"sha256": "09kpb9jn84np1z8k72ngsbd0xx6v0x3kcl738wizr64w0j9zhlla",
|
|
"depends": ["DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "rtracklayer", "S4Vectors", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"BioMM": {
|
|
"name": "BioMM",
|
|
"version": "1.15.0",
|
|
"sha256": "01lfw0npcclcyqqh2xkhjq9jw0irbk13fsj5y1b3rz1amzzngg6p",
|
|
"depends": ["BiocParallel", "CMplot", "e1071", "ggplot2", "glmnet", "imager", "lattice", "nsprcomp", "precrec", "ranger", "rms", "topGO", "vioplot", "xlsx"],
|
|
"broken": true
|
|
},
|
|
"BioNetStat": {
|
|
"name": "BioNetStat",
|
|
"version": "1.22.0",
|
|
"sha256": "1rbb36v64b9xbk2dsf6wsyrhwwbkysrj8fp1g22y3gisdk170sg8",
|
|
"depends": ["BiocParallel", "DT", "ggplot2", "Hmisc", "igraph", "knitr", "markdown", "pathview", "pheatmap", "plyr", "psych", "RColorBrewer", "RJSONIO", "rmarkdown", "shiny", "shinyBS", "whisker", "yaml"],
|
|
"broken": true
|
|
},
|
|
"BioPlex": {
|
|
"name": "BioPlex",
|
|
"version": "1.2.3",
|
|
"sha256": "0cn0x6ij2a3xy61bq0qy5amp0ipj4r4shh7g0vlwbkrclj9w347r",
|
|
"depends": ["BiocFileCache", "GenomeInfoDb", "GenomicRanges", "GEOquery", "graph", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"BioTIP": {
|
|
"name": "BioTIP",
|
|
"version": "1.16.0",
|
|
"sha256": "1bbjfv3bi20xlk8h7r5ipav6mfs27lmj0zjb5mk1gmp071dmnk0y",
|
|
"depends": ["cluster", "GenomicRanges", "igraph", "MASS", "psych", "scran", "stringr"],
|
|
"broken": true
|
|
},
|
|
"BiocDockerManager": {
|
|
"name": "BiocDockerManager",
|
|
"version": "1.11.0",
|
|
"sha256": "0w393f14i253pnk0jzf2ci4g5cnxshwdjmix2r8arlnadh7spjyk",
|
|
"depends": ["dplyr", "httr", "memoise", "readr", "whisker"],
|
|
"broken": true
|
|
},
|
|
"BitSeq": {
|
|
"name": "BitSeq",
|
|
"version": "1.41.0",
|
|
"sha256": "185cssrvaw2x0r3y5fqnfqm31924ccwg33qpj3v8ywrh3x7qn22p",
|
|
"depends": ["IRanges", "Rhtslib", "Rsamtools", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"BrainSABER": {
|
|
"name": "BrainSABER",
|
|
"version": "1.8.0",
|
|
"sha256": "1nxcjvaip7pp387bhdc2pmjai3chib1n63ig0cslhppzzjp2y6jd",
|
|
"depends": ["BiocFileCache", "biomaRt", "data_table", "lsa", "S4Vectors", "shiny", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"CAnD": {
|
|
"name": "CAnD",
|
|
"version": "1.27.0",
|
|
"sha256": "14x0m5iv7dm1iii5zsny9wnf4j5ddh0kij2jm658r3i4wnc99mkb",
|
|
"depends": ["ggplot2", "reshape"],
|
|
"broken": true
|
|
},
|
|
"CNVgears": {
|
|
"name": "CNVgears",
|
|
"version": "1.8.0",
|
|
"sha256": "1p7dxzkna3czkpsidj586hfwhymrjwvjr6q5f2pq7zlmpn6f8svx",
|
|
"depends": ["data_table", "ggplot2"],
|
|
"broken": true
|
|
},
|
|
"COHCAP": {
|
|
"name": "COHCAP",
|
|
"version": "1.48.0",
|
|
"sha256": "1czbmjmrldp4xwf2pi542aqxxgjg34bvky716fjf5y3zxp4j5pnd",
|
|
"depends": ["BH", "COHCAPanno", "gplots", "RColorBrewer", "Rcpp", "RcppArmadillo", "WriteXLS"],
|
|
"broken": true
|
|
},
|
|
"CORREP": {
|
|
"name": "CORREP",
|
|
"version": "1.68.0",
|
|
"sha256": "1ida60gpbkr5iyn74y6df8gd0znjkzbidyi7sz4my47fw4j8wrin",
|
|
"depends": ["e1071"],
|
|
"broken": true
|
|
},
|
|
"CSSP": {
|
|
"name": "CSSP",
|
|
"version": "1.37.0",
|
|
"sha256": "08l8ag82n9hdrj31m37f4fm9kvxjx7xyprdlbi20aqrzsrd227gr",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"CancerInSilico": {
|
|
"name": "CancerInSilico",
|
|
"version": "2.18.0",
|
|
"sha256": "0szbz88wnr3dbf7k9bhihv6hkr29gsp9vrllr201wx5qfzl2gncy",
|
|
"depends": ["BH", "Rcpp"],
|
|
"broken": true
|
|
},
|
|
"CancerSubtypes": {
|
|
"name": "CancerSubtypes",
|
|
"version": "1.26.0",
|
|
"sha256": "06lw7b43fwh554870w71i676q6gm6kx53580cgg17a7prdjndkmr",
|
|
"depends": ["cluster", "ConsensusClusterPlus", "impute", "limma", "NMF", "sigclust", "survival"],
|
|
"broken": true
|
|
},
|
|
"CellaRepertorium": {
|
|
"name": "CellaRepertorium",
|
|
"version": "1.12.0",
|
|
"sha256": "0k9sxh0b9g2841zpkbmcc65v0kfyv1i6sxzdmbr49nzzm27xlbh2",
|
|
"depends": ["BiocGenerics", "Biostrings", "dplyr", "forcats", "generics", "glue", "Matrix", "progress", "purrr", "Rcpp", "reshape2", "rlang", "S4Vectors", "stringr", "tibble", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"ChIC": {
|
|
"name": "ChIC",
|
|
"version": "1.19.0",
|
|
"sha256": "0zbmhixxn3skn8csz93fyyfamz1n3gzjzb2caw8ybi2cysgzz5ys",
|
|
"depends": ["BiocGenerics", "caret", "caTools", "ChIC_data", "genomeIntervals", "GenomicRanges", "IRanges", "progress", "randomForest", "Rsamtools", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"Clonality": {
|
|
"name": "Clonality",
|
|
"version": "1.47.0",
|
|
"sha256": "0yxwwc0sl3impvzr0bmjmdn65z6qx6lf5pwik2p8wxxgaybvff9r",
|
|
"depends": ["DNAcopy"],
|
|
"broken": true
|
|
},
|
|
"CoRegNet": {
|
|
"name": "CoRegNet",
|
|
"version": "1.38.0",
|
|
"sha256": "19df43l35dkf36dhq8fx8a9gm1grxymrmpcix0b4qmxrzwjp0s8k",
|
|
"depends": ["arules", "igraph", "shiny"],
|
|
"broken": true
|
|
},
|
|
"CoSIA": {
|
|
"name": "CoSIA",
|
|
"version": "1.2.0",
|
|
"sha256": "14d7l88346wkh4fj9y4f2lywfqbawz60z86f6wm2r2vh8zhcbk8i",
|
|
"depends": ["AnnotationDbi", "annotationTools", "biomaRt", "dplyr", "ExperimentHub", "ggplot2", "homologene", "magrittr", "org_Ce_eg_db", "org_Dm_eg_db", "org_Dr_eg_db", "org_Hs_eg_db", "org_Mm_eg_db", "org_Rn_eg_db", "plotly", "RColorBrewer", "readr", "stringr", "tibble", "tidyr", "tidyselect"],
|
|
"broken": true
|
|
},
|
|
"CompGO": {
|
|
"name": "CompGO",
|
|
"version": "1.28.0",
|
|
"sha256": "16nlrk9wbxj51y8s7s58mdhpi70ghfacxi283406gwya3cm79f0n",
|
|
"depends": ["GenomicFeatures", "ggplot2", "pathview", "pcaMethods", "reshape2", "Rgraphviz", "rtracklayer", "TxDb_Mmusculus_UCSC_mm9_knownGene"],
|
|
"broken": true
|
|
},
|
|
"CopywriteR": {
|
|
"name": "CopywriteR",
|
|
"version": "2.29.0",
|
|
"sha256": "1h4cyrjwdazgk49yzi9lvya8bfz9r4cpq19hyzikvc81ia8zdxs6",
|
|
"depends": ["BiocParallel", "chipseq", "CopyhelpeR", "data_table", "DNAcopy", "futile_logger", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "gtools", "IRanges", "matrixStats", "Rsamtools", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"CountClust": {
|
|
"name": "CountClust",
|
|
"version": "1.21.0",
|
|
"sha256": "17px9jkpjwz0j2f5h8xv52wh24ilqvlb6dvczjc36lb7mq4cw3sq",
|
|
"depends": ["cowplot", "flexmix", "ggplot2", "gtools", "limma", "maptpx", "picante", "plyr", "reshape2", "slam", "SQUAREM"],
|
|
"broken": true
|
|
},
|
|
"CytoTree": {
|
|
"name": "CytoTree",
|
|
"version": "1.6.0",
|
|
"sha256": "1dsdhwjkd3ngnw50fs6vz048afk47r95vhi0wqj8sip11nhndkd8",
|
|
"depends": ["Biobase", "BiocNeighbors", "cluster", "destiny", "flowCore", "FlowSOM", "flowUtils", "ggplot2", "gmodels", "igraph", "limma", "Matrix", "matrixStats", "mclust", "pheatmap", "prettydoc", "RANN", "Rcpp", "Rtsne", "scatterpie", "scatterplot3d", "stringr", "sva", "umap"],
|
|
"broken": true
|
|
},
|
|
"DEComplexDisease": {
|
|
"name": "DEComplexDisease",
|
|
"version": "1.18.0",
|
|
"sha256": "12gw9b0gdwyih51j2gzay6vxhycgc52n8svd0slv6wsbw5rc19lh",
|
|
"depends": ["BiocParallel", "ComplexHeatmap", "DESeq2", "edgeR", "Rcpp", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"DMRforPairs": {
|
|
"name": "DMRforPairs",
|
|
"version": "1.35.0",
|
|
"sha256": "1fdj2kk4hy1cy7lvxdcdigzvjsggsrchff10mccwwpycc4h115dj",
|
|
"depends": ["GenomicRanges", "Gviz", "R2HTML"],
|
|
"broken": true
|
|
},
|
|
"DeepBlueR": {
|
|
"name": "DeepBlueR",
|
|
"version": "1.27.0",
|
|
"sha256": "03v1ag250zq8wj3fxnsg2ii8l93vq6dg9dxqyiqdjnbvxc0y26xg",
|
|
"depends": ["data_table", "diffr", "dplyr", "filehash", "foreach", "GenomeInfoDb", "GenomicRanges", "R_utils", "RCurl", "rjson", "rtracklayer", "settings", "stringr", "withr", "XML"],
|
|
"broken": true
|
|
},
|
|
"EBSeqHMM": {
|
|
"name": "EBSeqHMM",
|
|
"version": "1.35.0",
|
|
"sha256": "1vgpda6h9caq67iqdd88mrhq8502jc056zf8fgwfgd8z9cayhsdn",
|
|
"depends": ["EBSeq"],
|
|
"broken": true
|
|
},
|
|
"EasyqpcR": {
|
|
"name": "EasyqpcR",
|
|
"version": "1.31.0",
|
|
"sha256": "0lb2px789668fr1gxghycy7lbdkpwmippv6xmmwws6rbanvfd6v4",
|
|
"depends": ["matrixStats", "plotrix", "plyr"],
|
|
"broken": true
|
|
},
|
|
"EpiCompare": {
|
|
"name": "EpiCompare",
|
|
"version": "1.6.7",
|
|
"sha256": "1vaxxikfvmi5n8s80df7sb2jqdvc8q66ybw8hshp79f98aiczfgc",
|
|
"depends": ["AnnotationHub", "BiocGenerics", "BRGenomics", "ChIPseeker", "data_table", "downloadthis", "genomation", "GenomeInfoDb", "GenomicRanges", "ggplot2", "htmltools", "IRanges", "plotly", "reshape2", "rmarkdown", "rtracklayer", "stringr"],
|
|
"broken": true
|
|
},
|
|
"FCBF": {
|
|
"name": "FCBF",
|
|
"version": "2.8.0",
|
|
"sha256": "1clg3s2av70j0pm0yj0ckvlklkkg5zb0r057pz6wmklllfkmx1dv",
|
|
"depends": ["ggplot2", "gridExtra", "mclust", "pbapply", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"FScanR": {
|
|
"name": "FScanR",
|
|
"version": "1.10.0",
|
|
"sha256": "1v4iq2wlvxf0wbs2d9ip3pcfx3a533pqp4as9pr0f6q57cvqi2bs",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"FindMyFriends": {
|
|
"name": "FindMyFriends",
|
|
"version": "1.23.0",
|
|
"sha256": "0xbhl6ljxb522r5062vv6xdziaaqkkwylmvlymvc5f1grjz0a4z9",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "Biostrings", "digest", "dplyr", "filehash", "ggdendro", "ggplot2", "gtable", "igraph", "IRanges", "kebabs", "Matrix", "Rcpp", "reshape2", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"FlowRepositoryR": {
|
|
"name": "FlowRepositoryR",
|
|
"version": "1.23.0",
|
|
"sha256": "04lk2cahf6zqnhpzh0zwas4vmvaz4kcik9ri65bs9d9ximzjam91",
|
|
"depends": ["jsonlite", "RCurl", "XML"],
|
|
"broken": true
|
|
},
|
|
"FoldGO": {
|
|
"name": "FoldGO",
|
|
"version": "1.18.0",
|
|
"sha256": "0h08yv1kykllaanc562ncwv3ajic7cd4wcqba24nlbh6agsazwyk",
|
|
"depends": ["ggplot2", "tidyr", "topGO"],
|
|
"broken": true
|
|
},
|
|
"FunChIP": {
|
|
"name": "FunChIP",
|
|
"version": "1.28.0",
|
|
"sha256": "1qhwabm7vgjqmgxdla6qs70sncvzjc8qh5vpq5xqp50hk1lli7f1",
|
|
"depends": ["doParallel", "fda", "foreach", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "RColorBrewer", "Rcpp", "Rsamtools", "shiny"],
|
|
"broken": true
|
|
},
|
|
"GAPGOM": {
|
|
"name": "GAPGOM",
|
|
"version": "1.11.0",
|
|
"sha256": "0sl97w5zx4zdrdbcwayqyvgxspaxpbils3mpsrim0zlspjrjcy6z",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocFileCache", "data_table", "dplyr", "fastmatch", "GEOquery", "GO_db", "GOSemSim", "graph", "igraph", "magrittr", "Matrix", "matrixStats", "org_Hs_eg_db", "org_Mm_eg_db", "plyr", "RBGL"],
|
|
"broken": true
|
|
},
|
|
"GCSConnection": {
|
|
"name": "GCSConnection",
|
|
"version": "1.7.0",
|
|
"sha256": "1psmw3825whyzvbzqpqksgcl09b6kfyb8k5vny6ljkjbac1jzvnf",
|
|
"depends": ["googleAuthR", "googleCloudStorageR", "httr", "jsonlite", "Rcpp"],
|
|
"broken": true
|
|
},
|
|
"GCSFilesystem": {
|
|
"name": "GCSFilesystem",
|
|
"version": "1.6.0",
|
|
"sha256": "0qk8xyg06f71y4r1q1zpcj89irh9i6cd9z6nqlx635x8if84sh6d",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"GCSscore": {
|
|
"name": "GCSscore",
|
|
"version": "1.14.0",
|
|
"sha256": "0fqr0sgplpbkdpvwgi8fpmwmnqja41622pvkkzsalbzai021hgp3",
|
|
"depends": ["affxparser", "Biobase", "BiocManager", "data_table", "devtools", "dplR", "RSQLite", "stringr"],
|
|
"broken": true
|
|
},
|
|
"GISPA": {
|
|
"name": "GISPA",
|
|
"version": "1.26.0",
|
|
"sha256": "19vbcfdf959xs6kgds37ij3qay9x61dzrlvcs238m7hywl4dn3lz",
|
|
"depends": ["Biobase", "changepoint", "data_table", "genefilter", "GSEABase", "HH", "lattice", "latticeExtra", "plyr", "scatterplot3d"],
|
|
"broken": true
|
|
},
|
|
"GOSim": {
|
|
"name": "GOSim",
|
|
"version": "1.40.0",
|
|
"sha256": "1izsjs3li1qcp2nfy7zk3zbf3hh7kq75r78ijbn5yln9fgs6mbv1",
|
|
"depends": ["annotate", "AnnotationDbi", "cluster", "corpcor", "flexmix", "GO_db", "graph", "Matrix", "org_Hs_eg_db", "RBGL", "Rcpp", "topGO"],
|
|
"broken": true
|
|
},
|
|
"GOsummaries": {
|
|
"name": "GOsummaries",
|
|
"version": "2.37.0",
|
|
"sha256": "1r2a1bym6hwhah4gq47j7983znwsl3fwbhx9lw9j1nxm4ip0d7nr",
|
|
"depends": ["ggplot2", "gProfileR", "gtable", "limma", "plyr", "Rcpp", "reshape2"],
|
|
"broken": true
|
|
},
|
|
"GRridge": {
|
|
"name": "GRridge",
|
|
"version": "1.22.0",
|
|
"sha256": "0vmwm50dwk3im3qx40vh9ipmfqywzz5fmmm79b74zjcd3qjrznf3",
|
|
"depends": ["glmnet", "graph", "Iso", "mvtnorm", "penalized", "survival"],
|
|
"broken": true
|
|
},
|
|
"GeneAccord": {
|
|
"name": "GeneAccord",
|
|
"version": "1.15.0",
|
|
"sha256": "1dlnqdcrl1fv5yf0zwfgkqfd2x19fv6q84p7c730nmnnaqal6md1",
|
|
"depends": ["biomaRt", "caTools", "dplyr", "ggplot2", "ggpubr", "gtools", "magrittr", "maxLik", "RColorBrewer", "reshape2", "tibble"],
|
|
"broken": true
|
|
},
|
|
"GeneAnswers": {
|
|
"name": "GeneAnswers",
|
|
"version": "2.36.0",
|
|
"sha256": "1f8q3hi913khyy1cc3yp2635gaik47alsqmhi0mi24cy340faplz",
|
|
"depends": ["annotate", "Biobase", "downloader", "Heatplus", "igraph", "KEGGREST", "MASS", "RBGL", "RColorBrewer", "RCurl", "RSQLite", "XML"],
|
|
"broken": true
|
|
},
|
|
"GenoGAM": {
|
|
"name": "GenoGAM",
|
|
"version": "2.11.0",
|
|
"sha256": "058qix2h0zm2k9csmbdhci2wqih3lyggjj591cqn0ls2nv7bnyvj",
|
|
"depends": ["BiocParallel", "Biostrings", "data_table", "DelayedArray", "DESeq2", "futile_logger", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "HDF5Array", "IRanges", "Matrix", "Rcpp", "RcppArmadillo", "rhdf5", "Rsamtools", "S4Vectors", "sparseinv", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"HPAStainR": {
|
|
"name": "HPAStainR",
|
|
"version": "1.9.0",
|
|
"sha256": "1bjysi3x8248f262v4rzi2y50rlzryb987wbvdjy6af84nq7hd09",
|
|
"depends": ["data_table", "dplyr", "scales", "shiny", "stringr", "tibble", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"HTqPCR": {
|
|
"name": "HTqPCR",
|
|
"version": "1.56.0",
|
|
"sha256": "14cff36ikbqhd5xizihpxzsv9jimcpbgnd381jd154pgi60bil0m",
|
|
"depends": ["affy", "Biobase", "gplots", "limma", "RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"IRISFGM": {
|
|
"name": "IRISFGM",
|
|
"version": "1.8.0",
|
|
"sha256": "1n13rsbg5y0xnr6in18silifx8jhqzjj1vb5kpjgy5ml55im1s5r",
|
|
"depends": ["AdaptGauss", "AnnotationDbi", "anocva", "clusterProfiler", "colorspace", "DEsingle", "DrImpute", "ggplot2", "ggpubr", "ggraph", "igraph", "knitr", "Matrix", "MCL", "mixtools", "org_Hs_eg_db", "org_Mm_eg_db", "pheatmap", "Polychrome", "RColorBrewer", "Rcpp", "scater", "scran", "Seurat", "SingleCellExperiment"],
|
|
"broken": true
|
|
},
|
|
"ImmuneSpaceR": {
|
|
"name": "ImmuneSpaceR",
|
|
"version": "1.30.0",
|
|
"sha256": "0lhilrh4xyw1cvqnx4b6g0llm9b1i4l2r476d4hmypkkgl25q8n7",
|
|
"depends": ["Biobase", "curl", "data_table", "digest", "flowCore", "flowWorkspace", "ggplot2", "gplots", "heatmaply", "httr", "jsonlite", "pheatmap", "plotly", "preprocessCore", "R6", "Rlabkey", "rmarkdown", "scales"],
|
|
"broken": true
|
|
},
|
|
"IntOMICS": {
|
|
"name": "IntOMICS",
|
|
"version": "1.2.0",
|
|
"sha256": "1qhni8p8zap9szi499jrdxkacdrb7vdd4va5h4n0kdi4qr80vrzh",
|
|
"depends": ["bestNormalize", "bnlearn", "bnstruct", "cowplot", "ggplot2", "ggraph", "gplots", "igraph", "matrixStats", "numbers", "RColorBrewer", "rlang", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"IsoGeneGUI": {
|
|
"name": "IsoGeneGUI",
|
|
"version": "2.31.0",
|
|
"sha256": "1w7zxsvmcrz8cj8g8xa1vqbzfycdhgsclhcjmkqjw1hwz6fp3xgn",
|
|
"depends": ["Biobase", "ff", "geneplotter", "goric", "Iso", "IsoGene", "jpeg", "multtest", "ORCME", "ORIClust", "RColorBrewer", "Rcpp", "relimp", "tkrplot", "xlsx"],
|
|
"broken": true
|
|
},
|
|
"LPEadj": {
|
|
"name": "LPEadj",
|
|
"version": "1.62.0",
|
|
"sha256": "17m5lclr2rwb2z0i230gsxkccysmpcvsp4kxjpdjhvnikfm46ssp",
|
|
"depends": ["LPE"],
|
|
"broken": true
|
|
},
|
|
"LineagePulse": {
|
|
"name": "LineagePulse",
|
|
"version": "1.21.0",
|
|
"sha256": "09x1i7slysqf3dpjzck6rgfzhyswaj0kk8i047yscg8fcaksbmqg",
|
|
"depends": ["BiocParallel", "circlize", "ComplexHeatmap", "ggplot2", "gplots", "knitr", "Matrix", "RColorBrewer", "SingleCellExperiment", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"LowMACA": {
|
|
"name": "LowMACA",
|
|
"version": "1.28.0",
|
|
"sha256": "0j5233xziszwak65rypd9f8lsp25sdr4j5nm5kanj4d4wd0zsdqv",
|
|
"depends": ["BiocParallel", "Biostrings", "cBioPortalData", "data_table", "gridBase", "httr", "LowMACAAnnotation", "motifStack", "plyr", "RColorBrewer", "reshape2", "stringr"],
|
|
"broken": true
|
|
},
|
|
"MACPET": {
|
|
"name": "MACPET",
|
|
"version": "1.15.1",
|
|
"sha256": "0742i3fxg2793lhgpxb4whh6mwvzd4bn86ykd0rv8sgilxyq5zsl",
|
|
"depends": ["BH", "bigmemory", "BiocParallel", "Biostrings", "futile_logger", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "GEOquery", "gtools", "InteractionSet", "intervals", "IRanges", "knitr", "plyr", "Rbowtie", "Rcpp", "Rsamtools", "rtracklayer", "S4Vectors", "ShortRead"],
|
|
"broken": true
|
|
},
|
|
"MIGSA": {
|
|
"name": "MIGSA",
|
|
"version": "1.21.0",
|
|
"sha256": "0b7w9lzi8xb1vzh7zahw7wh9jm7x1y04rs2gvvjmfbdfw085rdpm",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "BiocParallel", "data_table", "edgeR", "futile_logger", "ggdendro", "ggplot2", "GO_db", "GOstats", "graph", "GSEABase", "ismev", "jsonlite", "limma", "matrixStats", "org_Hs_eg_db", "RBGL", "reshape2", "Rgraphviz", "vegan"],
|
|
"broken": true
|
|
},
|
|
"MIMOSA": {
|
|
"name": "MIMOSA",
|
|
"version": "1.37.0",
|
|
"sha256": "0dpz0r1kswdb4wzkpj5798gs627vzvvbwbkild2fc1gvmh9p8lwc",
|
|
"depends": ["Biobase", "coda", "data_table", "dplyr", "Formula", "ggplot2", "MASS", "MCMCpack", "modeest", "plyr", "pracma", "Rcpp", "RcppArmadillo", "reshape", "rlang", "scales", "testthat", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"MMAPPR2": {
|
|
"name": "MMAPPR2",
|
|
"version": "1.14.0",
|
|
"sha256": "14m41hi79f7m2qigjjcgy08awrf0654ridgm6wxcq8cmmlm68g8a",
|
|
"depends": ["Biobase", "BiocGenerics", "BiocParallel", "data_table", "dplyr", "ensemblVEP", "GenomeInfoDb", "GenomicRanges", "gmapR", "IRanges", "magrittr", "Rsamtools", "S4Vectors", "stringr", "tidyr", "VariantAnnotation", "VariantTools"],
|
|
"broken": true
|
|
},
|
|
"MQmetrics": {
|
|
"name": "MQmetrics",
|
|
"version": "1.10.0",
|
|
"sha256": "15jkmdj2k5h8vbi332y7b4xzm2330g2s13l6lf2d1v9pg5aqrisq",
|
|
"depends": ["cowplot", "dplyr", "ggforce", "gghalves", "ggplot2", "ggpubr", "ggrepel", "gridExtra", "gtable", "knitr", "magrittr", "plyr", "purrr", "RColorBrewer", "readr", "reshape2", "rlang", "rmarkdown", "scales", "stringr", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"MSEADbi": {
|
|
"name": "MSEADbi",
|
|
"version": "1.2.0",
|
|
"sha256": "1g1kg3nh7iwg5nrpmig6srw6as4yfwmbqn965pffrk0zp19llsbf",
|
|
"depends": ["AnnotationDbi", "Biobase", "DBI", "RSQLite"],
|
|
"broken": true
|
|
},
|
|
"MSGFgui": {
|
|
"name": "MSGFgui",
|
|
"version": "1.28.0",
|
|
"sha256": "0dkj2nbv5xv4v4bbmf91av0ryh9pxdfp7fmbqlma4xyf1r7zmx4c",
|
|
"depends": ["MSGFplus", "mzID", "mzR", "shiny", "shinyFiles", "xlsx"],
|
|
"broken": true
|
|
},
|
|
"MSGFplus": {
|
|
"name": "MSGFplus",
|
|
"version": "1.28.0",
|
|
"sha256": "1k0qm049gk4gjhd88zhxxrpc944r7ndq8dys08ai2kbaqignvb7y",
|
|
"depends": ["mzID", "ProtGenerics"],
|
|
"broken": true
|
|
},
|
|
"MSstatsSampleSize": {
|
|
"name": "MSstatsSampleSize",
|
|
"version": "1.13.0",
|
|
"sha256": "09gmlqxb65pa4wxh5bryb6lhs68zrfaqfl7n3k9shvzi3iw02vp3",
|
|
"depends": ["BiocParallel", "caret", "ggplot2", "gridExtra", "MSstats", "reshape2"],
|
|
"broken": true
|
|
},
|
|
"MSstatsTMTPTM": {
|
|
"name": "MSstatsTMTPTM",
|
|
"version": "1.1.2",
|
|
"sha256": "16qnddwhwhjjfr5akdrmp93gkxq2r41s82hb1blbz47lwbj5kaj5",
|
|
"depends": ["dplyr", "ggplot2", "gridExtra", "MSstatsTMT", "Rcpp", "reshape2", "stringr"],
|
|
"broken": true
|
|
},
|
|
"MetaVolcanoR": {
|
|
"name": "MetaVolcanoR",
|
|
"version": "1.14.0",
|
|
"sha256": "11fxjv0kb65wc2237rh3340j72v3zsd4s019bi07rbpqnl246pnj",
|
|
"depends": ["cowplot", "data_table", "dplyr", "ggplot2", "htmlwidgets", "metafor", "metap", "plotly", "rlang", "tidyr", "topconfects"],
|
|
"broken": true
|
|
},
|
|
"Metab": {
|
|
"name": "Metab",
|
|
"version": "1.33.0",
|
|
"sha256": "0fid4b3yk56z2sm6hxfp0z30nqjsky9sv4x49x912bw61amvrwky",
|
|
"depends": ["pander", "svDialogs", "xcms"],
|
|
"broken": true
|
|
},
|
|
"MethCP": {
|
|
"name": "MethCP",
|
|
"version": "1.11.0",
|
|
"sha256": "099jaadjfalvxpwq3k630yrqa1dfbp8rqn2fahz1rsha3y5z9bys",
|
|
"depends": ["BiocParallel", "bsseq", "DNAcopy", "DSS", "GenomeInfoDb", "GenomicRanges", "IRanges", "methylKit", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"MobilityTransformR": {
|
|
"name": "MobilityTransformR",
|
|
"version": "1.6.0",
|
|
"sha256": "1292fk08zi1zf0hdj56vzdgv9h9nr16vmbzypqkam7lvqqnig49h",
|
|
"depends": ["MetaboCoreUtils", "MSnbase", "Spectra", "xcms"],
|
|
"broken": true
|
|
},
|
|
"NBSplice": {
|
|
"name": "NBSplice",
|
|
"version": "1.15.0",
|
|
"sha256": "0yn7s7igshall34cflmdwvmknv8h1zdi6vg8svvcyn9fvzlgjdm8",
|
|
"depends": ["BiocParallel", "car", "edgeR", "ggplot2", "MASS", "reshape2"],
|
|
"broken": true
|
|
},
|
|
"NanoStringQCPro": {
|
|
"name": "NanoStringQCPro",
|
|
"version": "1.32.0",
|
|
"sha256": "0k2sgs6d25ryjlm9c17nxqqcdi3q04j3y9qb1rig23jimfvs3xs9",
|
|
"depends": ["AnnotationDbi", "Biobase", "knitr", "NMF", "org_Hs_eg_db", "png", "RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"NeighborNet": {
|
|
"name": "NeighborNet",
|
|
"version": "1.18.0",
|
|
"sha256": "046k1799wz77ww4jhf935pfz2637dmzy7p848iyjxj1yc5g51jq8",
|
|
"depends": ["graph"],
|
|
"broken": true
|
|
},
|
|
"NxtIRFcore": {
|
|
"name": "NxtIRFcore",
|
|
"version": "1.6.0",
|
|
"sha256": "1x3645v6ar8mpmyk6hd5w3m38496g68l2vdh80vh0hhlqlrp17n2",
|
|
"depends": ["AnnotationHub", "BiocFileCache", "BiocGenerics", "BiocParallel", "Biostrings", "BSgenome", "data_table", "DelayedArray", "DelayedMatrixStats", "fst", "genefilter", "GenomeInfoDb", "GenomicRanges", "ggplot2", "HDF5Array", "IRanges", "magrittr", "NxtIRFdata", "plotly", "R_utils", "Rcpp", "RcppProgress", "rhdf5", "rtracklayer", "S4Vectors", "SummarizedExperiment", "zlibbioc"],
|
|
"broken": true
|
|
},
|
|
"ODER": {
|
|
"name": "ODER",
|
|
"version": "1.6.0",
|
|
"sha256": "17c3hvdghli6i88yqy6dclzyad60s0d6y4hng6i4bycc9fnan41w",
|
|
"depends": ["BiocFileCache", "BiocGenerics", "dasper", "data_table", "derfinder", "dplyr", "GenomeInfoDb", "GenomicRanges", "ggplot2", "ggpubr", "ggrepel", "IRanges", "magrittr", "megadepth", "plyr", "purrr", "rtracklayer", "S4Vectors", "stringr", "tibble"],
|
|
"broken": true
|
|
},
|
|
"OmicsLonDA": {
|
|
"name": "OmicsLonDA",
|
|
"version": "1.15.0",
|
|
"sha256": "1kn26k0lnk7hgfzk1kh5bh41zkia8a4pzsfr35mbjrflcxmvgk2w",
|
|
"depends": ["BiocGenerics", "BiocParallel", "ggplot2", "gss", "plyr", "pracma", "SummarizedExperiment", "zoo"],
|
|
"broken": true
|
|
},
|
|
"PERFect": {
|
|
"name": "PERFect",
|
|
"version": "1.14.0",
|
|
"sha256": "0ygbirfnp122c8jzrig5cnm6rxyhz126ixl5ca49i13kizcv2ns9",
|
|
"depends": ["fitdistrplus", "ggplot2", "Matrix", "phyloseq", "psych", "sn", "zoo"],
|
|
"broken": true
|
|
},
|
|
"PFP": {
|
|
"name": "PFP",
|
|
"version": "1.7.0",
|
|
"sha256": "1328a73ggg7l1drjbmv67jcvlv83khn1k252mf81xj4gf213d0di",
|
|
"depends": ["clusterProfiler", "ggplot2", "graph", "igraph", "KEGGgraph", "magrittr", "plyr", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"PSEA": {
|
|
"name": "PSEA",
|
|
"version": "1.36.0",
|
|
"sha256": "02gnxacnpzz74bk4y4nkd6pd8y8abi0988zf03x1mcgnn7hk1s2y",
|
|
"depends": ["Biobase", "MASS"],
|
|
"broken": true
|
|
},
|
|
"PSICQUIC": {
|
|
"name": "PSICQUIC",
|
|
"version": "1.34.0",
|
|
"sha256": "0gkkxxbc2a7cin92qwn1masqfigyz9s4fhyy2daa17r3ckk4ccgx",
|
|
"depends": ["BiocGenerics", "biomaRt", "httr", "IRanges", "plyr", "RCurl"],
|
|
"broken": true
|
|
},
|
|
"PanVizGenerator": {
|
|
"name": "PanVizGenerator",
|
|
"version": "1.22.0",
|
|
"sha256": "0rhx2jc5kc9bl00v16frh8b4075n0jqn4s37pkvqp3ypcbqws32d",
|
|
"depends": ["igraph", "jsonlite", "pcaMethods", "shiny"],
|
|
"broken": true
|
|
},
|
|
"Pi": {
|
|
"name": "Pi",
|
|
"version": "2.14.0",
|
|
"sha256": "16jh7p3f6nk2hwvp44b9sas1dl618m520xj553x9dkaj77jmzp6d",
|
|
"depends": ["BiocGenerics", "caret", "dplyr", "GenomeInfoDb", "GenomicRanges", "ggnetwork", "ggplot2", "ggrepel", "glmnet", "igraph", "IRanges", "lattice", "MASS", "Matrix", "osfr", "plot3D", "purrr", "randomForest", "RCircos", "readr", "ROCR", "scales", "supraHex", "tibble", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"PloGO2": {
|
|
"name": "PloGO2",
|
|
"version": "1.14.0",
|
|
"sha256": "0r0zf8dfb4pv4hv5fp5v61i3q5bnzwxws1v3cnx7l64b0hjl2ffi",
|
|
"depends": ["GO_db", "GOstats", "httr", "lattice", "openxlsx", "xtable"],
|
|
"broken": true
|
|
},
|
|
"PoTRA": {
|
|
"name": "PoTRA",
|
|
"version": "1.13.0",
|
|
"sha256": "1a32d1wndb24pxza3h53yddj9z2clff5srny2k00pbbfq1h99mjf",
|
|
"depends": ["BiocGenerics", "graph", "graphite", "igraph", "org_Hs_eg_db"],
|
|
"broken": true
|
|
},
|
|
"PrecisionTrialDrawer": {
|
|
"name": "PrecisionTrialDrawer",
|
|
"version": "1.11.0",
|
|
"sha256": "1miw8rj1zn1xv97dkgs66k9g21i6gp3j2m1l1akysskczgam3i2c",
|
|
"depends": ["BiocParallel", "biomaRt", "brglm", "data_table", "DT", "GenomicRanges", "ggplot2", "ggrepel", "googleVis", "httr", "IRanges", "jsonlite", "LowMACAAnnotation", "magrittr", "matrixStats", "RColorBrewer", "reshape2", "S4Vectors", "shiny", "shinyBS", "stringr", "XML"],
|
|
"broken": true
|
|
},
|
|
"ProteomicsAnnotationHubData": {
|
|
"name": "ProteomicsAnnotationHubData",
|
|
"version": "1.24.0",
|
|
"sha256": "0qs5hbx7pww7qxxaimp2xqvs3lwcd41ndls0xcvvlk7pnp4i4sk8",
|
|
"depends": ["AnnotationHub", "AnnotationHubData", "Biobase", "BiocManager", "Biostrings", "GenomeInfoDb", "MSnbase", "mzR", "RCurl"],
|
|
"broken": true
|
|
},
|
|
"PubScore": {
|
|
"name": "PubScore",
|
|
"version": "1.8.0",
|
|
"sha256": "18bmzvv6mxrdlh297i29q24vi5rc4x2mjaryi5asiki186x0hy8d",
|
|
"depends": ["dplyr", "ggplot2", "ggrepel", "igraph", "intergraph", "network", "progress", "rentrez", "sna"],
|
|
"broken": true
|
|
},
|
|
"RGalaxy": {
|
|
"name": "RGalaxy",
|
|
"version": "1.38.0",
|
|
"sha256": "0vfsn8cj5c8n58ra1qz85gwmm1747lm3xdz17m20f73g8q78nymd",
|
|
"depends": ["Biobase", "BiocGenerics", "optparse", "roxygen2", "XML"],
|
|
"broken": true
|
|
},
|
|
"RIPAT": {
|
|
"name": "RIPAT",
|
|
"version": "1.10.0",
|
|
"sha256": "154a79xyihxkg3sbwxz9ch0ixqlqv9gwkpsv88i55c75qyzkx2sm",
|
|
"depends": ["biomaRt", "GenomicRanges", "ggplot2", "IRanges", "karyoploteR", "openxlsx", "plyr", "regioneR", "rtracklayer", "stringr"],
|
|
"broken": true
|
|
},
|
|
"RLSeq": {
|
|
"name": "RLSeq",
|
|
"version": "1.5.2",
|
|
"sha256": "0nhip321gbv6phwdwi3qkbmhnfh7fhb9md6xs4lklskwkkrd7s1q",
|
|
"depends": ["AnnotationHub", "aws_s3", "callr", "caretEnsemble", "circlize", "ComplexHeatmap", "dplyr", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "ggplot2", "ggplotify", "ggprism", "pheatmap", "RColorBrewer", "regioneR", "rtracklayer", "valr", "VennDiagram"],
|
|
"broken": true
|
|
},
|
|
"RNASeqR": {
|
|
"name": "RNASeqR",
|
|
"version": "1.16.0",
|
|
"sha256": "0m7d3mm644n81630v2m6vv7798x3rjshb9jcp63xq631j1wmk63i",
|
|
"depends": ["ballgown", "Biostrings", "clusterProfiler", "corrplot", "DESeq2", "DOSE", "edgeR", "factoextra", "FactoMineR", "ggplot2", "gridExtra", "org_Hs_eg_db", "org_Sc_sgd_db", "pathview", "PerformanceAnalytics", "pheatmap", "rafalib", "reshape2", "reticulate", "Rsamtools", "stringr", "systemPipeR", "systemPipeRdata"],
|
|
"broken": true
|
|
},
|
|
"RandomWalkRestartMH": {
|
|
"name": "RandomWalkRestartMH",
|
|
"version": "1.22.0",
|
|
"sha256": "0mvh22p0dliwapdgbl5r93dpjdfnvnxdv5ig3y9gd2ndn32h1cyc",
|
|
"depends": ["igraph", "Matrix"],
|
|
"broken": true
|
|
},
|
|
"Rcade": {
|
|
"name": "Rcade",
|
|
"version": "1.39.1",
|
|
"sha256": "05cli4h96xcsf6xas9z5ma8bzh10grlwkfgmz4a115ykblwyaj4r",
|
|
"depends": ["baySeq", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "plotrix", "rgl", "Rsamtools", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"ReQON": {
|
|
"name": "ReQON",
|
|
"version": "1.48.0",
|
|
"sha256": "0w28b3ma8r8rshijdm5jj1z64v91my7hcvw18r9pdwjprh05bw0g",
|
|
"depends": ["rJava", "Rsamtools", "seqbias"],
|
|
"broken": true
|
|
},
|
|
"RefPlus": {
|
|
"name": "RefPlus",
|
|
"version": "1.70.0",
|
|
"sha256": "0ii4pki0gqsfcjlfwq5hx67yf0id2krrgs8qnss4gijj27m8h86m",
|
|
"depends": ["affy", "affyPLM", "Biobase", "preprocessCore"],
|
|
"broken": true
|
|
},
|
|
"Rgin": {
|
|
"name": "Rgin",
|
|
"version": "1.15.0",
|
|
"sha256": "1x5zj2d5rvsr2xh0ifpnrys9v91dal1xxhv5mmk16rs8wzwqpqba",
|
|
"depends": ["RcppEigen"],
|
|
"broken": true
|
|
},
|
|
"Ringo": {
|
|
"name": "Ringo",
|
|
"version": "1.66.0",
|
|
"sha256": "1ch0akd4k1i4401jwxll5awlq7g12pw7x0kidarn5zva08jgiixd",
|
|
"depends": ["Biobase", "BiocGenerics", "genefilter", "lattice", "limma", "Matrix", "RColorBrewer", "vsn"],
|
|
"broken": true
|
|
},
|
|
"Risa": {
|
|
"name": "Risa",
|
|
"version": "1.44.0",
|
|
"sha256": "140q4x4sl7mffpglwy7hx0z5la2rkq0p1j22k36a4h1073wcpc2q",
|
|
"depends": ["affy", "Biobase", "biocViews", "Rcpp", "xcms"],
|
|
"broken": true
|
|
},
|
|
"RmiR": {
|
|
"name": "RmiR",
|
|
"version": "1.49.0",
|
|
"sha256": "16nwh4a97qvyicm4f102xs52lx8cld0b80fykgil86kkd6v8zlja",
|
|
"depends": ["DBI", "RmiR_Hs_miRNA"],
|
|
"broken": true
|
|
},
|
|
"RpsiXML": {
|
|
"name": "RpsiXML",
|
|
"version": "2.38.0",
|
|
"sha256": "0x4nph4xss4piq4fgijjjj33yrqqfdbsgn9wvqy17nglvz5gi7bi",
|
|
"depends": ["annotate", "AnnotationDbi", "Biobase", "graph", "hypergraph", "RBGL", "XML"],
|
|
"broken": true
|
|
},
|
|
"SANTA": {
|
|
"name": "SANTA",
|
|
"version": "2.38.0",
|
|
"sha256": "0gm9i0pj3c9sir8pmh12b62ah6x1gvy1lrp9hc6hg9rkh4gpyr0y",
|
|
"depends": ["igraph", "Matrix"],
|
|
"broken": true
|
|
},
|
|
"SCATE": {
|
|
"name": "SCATE",
|
|
"version": "1.10.0",
|
|
"sha256": "1fkswn9xlbr4mrnr62yzk51dri7rzbvf28whh7qhdfxgyvavw439",
|
|
"depends": ["GenomicAlignments", "GenomicRanges", "mclust", "preprocessCore", "Rtsne", "SCATEData", "splines2", "xgboost"],
|
|
"broken": true
|
|
},
|
|
"SEPIRA": {
|
|
"name": "SEPIRA",
|
|
"version": "1.20.0",
|
|
"sha256": "1yhlm6l9jv8fhdhnhpj7r8cdpnrp1la287x85gcssqjnv5v4k047",
|
|
"depends": ["corpcor", "limma"],
|
|
"broken": true
|
|
},
|
|
"SISPA": {
|
|
"name": "SISPA",
|
|
"version": "1.30.0",
|
|
"sha256": "0glqk2p06brw9a9prccil02z82nhq2izh2sgfrlmi1kpf8mgszl3",
|
|
"depends": ["changepoint", "data_table", "genefilter", "ggplot2", "GSVA", "plyr"],
|
|
"broken": true
|
|
},
|
|
"SLGI": {
|
|
"name": "SLGI",
|
|
"version": "1.54.0",
|
|
"sha256": "03jwdq4k44rys3f773c6l985a6v1bacbdghw97p0qpwspmzra8rs",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "GO_db", "lattice"],
|
|
"broken": true
|
|
},
|
|
"SMAP": {
|
|
"name": "SMAP",
|
|
"version": "1.66.0",
|
|
"sha256": "0m6jvb3jpnk36cv8grj1s3af6nm9xnn3x0mxkrwfbpgzvcn5735n",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"SQUADD": {
|
|
"name": "SQUADD",
|
|
"version": "1.52.0",
|
|
"sha256": "0vg7mhx2aldk53jdgy4k8yk3jyjwklmp13mxch7cxinr8bzbyjh6",
|
|
"depends": ["RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"STAN": {
|
|
"name": "STAN",
|
|
"version": "2.26.2",
|
|
"sha256": "0dd4hb2iabvnr6v0ys4jslj7611z1hii8hxkdvwrjbz4nn678wkv",
|
|
"depends": ["BiocGenerics", "GenomeInfoDb", "GenomicRanges", "Gviz", "IRanges", "poilog", "Rsolnp", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"STROMA4": {
|
|
"name": "STROMA4",
|
|
"version": "1.24.0",
|
|
"sha256": "1x3zgxkcck8ffh89mql45cp54c94n64kf9x6dan9wl24bj3x869f",
|
|
"depends": ["Biobase", "BiocParallel", "cluster", "matrixStats"],
|
|
"broken": true
|
|
},
|
|
"ScISI": {
|
|
"name": "ScISI",
|
|
"version": "1.65.0",
|
|
"sha256": "0q3bbfsink5d8xslhp129qwvlq5mdzw8zkv9msd0q8qmkclsbiz1",
|
|
"depends": ["annotate", "AnnotationDbi", "apComplex", "GO_db", "org_Sc_sgd_db", "RpsiXML"],
|
|
"broken": true
|
|
},
|
|
"SimBindProfiles": {
|
|
"name": "SimBindProfiles",
|
|
"version": "1.40.0",
|
|
"sha256": "0adcyw4x7yw4v20bwx4fzrhqd7g1r9fhpr1nqqnwkg44b51rdm6z",
|
|
"depends": ["Biobase", "limma", "mclust", "Ringo"],
|
|
"broken": true
|
|
},
|
|
"SpidermiR": {
|
|
"name": "SpidermiR",
|
|
"version": "1.32.0",
|
|
"sha256": "07s421c8ashww8x99ac18fy1lvjl4zmm3jsz0fggw1gvii172c1x",
|
|
"depends": ["AnnotationDbi", "gdata", "httr", "igraph", "miRNAtap", "miRNAtap_db", "org_Hs_eg_db"],
|
|
"broken": true
|
|
},
|
|
"StarBioTrek": {
|
|
"name": "StarBioTrek",
|
|
"version": "1.28.0",
|
|
"sha256": "0cpgn0zcimg18yybfgrjzdczsinvx6n81jjm850gbi76ararq8sc",
|
|
"depends": ["AnnotationDbi", "e1071", "ggplot2", "graphite", "igraph", "MLmetrics", "reshape2", "ROCR", "SpidermiR"],
|
|
"broken": true
|
|
},
|
|
"SummarizedBenchmark": {
|
|
"name": "SummarizedBenchmark",
|
|
"version": "2.20.0",
|
|
"sha256": "16gzlkyf76fcd46ck417sxh86smivmaggqvyg0v9v0f4jac7610g",
|
|
"depends": ["BiocGenerics", "BiocParallel", "crayon", "digest", "dplyr", "ggplot2", "mclust", "rlang", "S4Vectors", "sessioninfo", "stringr", "SummarizedExperiment", "tibble", "tidyr", "UpSetR"],
|
|
"broken": true
|
|
},
|
|
"Sushi": {
|
|
"name": "Sushi",
|
|
"version": "1.34.0",
|
|
"sha256": "0adswrbzd93rhy3q56ypwkrk6155vd4zxapvznswyjlxp8ha813q",
|
|
"depends": ["biomaRt", "zoo"],
|
|
"broken": true
|
|
},
|
|
"SwimR": {
|
|
"name": "SwimR",
|
|
"version": "1.29.0",
|
|
"sha256": "0n58x3i4k3icvhg8z60zlhpszv8bb9pain07nl9rszyvmpi71vg2",
|
|
"depends": ["gplots", "R2HTML", "signal"],
|
|
"broken": true
|
|
},
|
|
"TCGAbiolinksGUI": {
|
|
"name": "TCGAbiolinksGUI",
|
|
"version": "1.23.0",
|
|
"sha256": "16757szccczlv1q35y1cnmlkr12s46f63z7ijffpb15q85xlaqdx",
|
|
"depends": ["caret", "clusterProfiler", "colourpicker", "data_table", "downloader", "DT", "ELMER", "ggplot2", "ggrepel", "maftools", "pathview", "plotly", "readr", "sesame", "shiny", "shinyBS", "shinydashboard", "shinyFiles", "shinyjs", "stringr", "SummarizedExperiment", "TCGAbiolinks", "TCGAbiolinksGUI_data"],
|
|
"broken": true
|
|
},
|
|
"TDARACNE": {
|
|
"name": "TDARACNE",
|
|
"version": "1.47.0",
|
|
"sha256": "19zf7x2wcfnij1nlh623kim63d6wb3p42mwsn35msds778jvcbxq",
|
|
"depends": ["Biobase", "Rgraphviz"],
|
|
"broken": true
|
|
},
|
|
"TNBC_CMS": {
|
|
"name": "TNBC.CMS",
|
|
"version": "1.18.0",
|
|
"sha256": "1syygq9br5icbjbmi1kq9gs7g3bw1vzmy8mlf8ga2rk1lw6ika90",
|
|
"depends": ["e1071", "forestplot", "GGally", "ggplot2", "ggpubr", "GSVA", "pheatmap", "pracma", "quadprog", "R_utils", "RColorBrewer", "SummarizedExperiment", "survival"],
|
|
"broken": true
|
|
},
|
|
"TSRchitect": {
|
|
"name": "TSRchitect",
|
|
"version": "1.20.0",
|
|
"sha256": "1v9zz8ny9rwkyz98cv49l9ilh68h8mvm2x44n8i8rvjayc50zi9i",
|
|
"depends": ["AnnotationHub", "BiocGenerics", "BiocParallel", "dplyr", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "gtools", "IRanges", "readxl", "Rsamtools", "rtracklayer", "S4Vectors", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"TarSeqQC": {
|
|
"name": "TarSeqQC",
|
|
"version": "1.28.0",
|
|
"sha256": "14ima8ymdb91lpkhdnsg6q7ajxs5p1xzzcsjfhixxkm341k45j35",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "cowplot", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "ggplot2", "Hmisc", "IRanges", "openxlsx", "plyr", "reshape2", "Rsamtools", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"TimeSeriesExperiment": {
|
|
"name": "TimeSeriesExperiment",
|
|
"version": "1.13.0",
|
|
"sha256": "0bdpxxr739qdg92qabfx122k9f43vw2hyxp4yxqlbp37vzgcdf2c",
|
|
"depends": ["DESeq2", "dplyr", "dynamicTreeCut", "edgeR", "ggplot2", "Hmisc", "limma", "magrittr", "proxy", "S4Vectors", "SummarizedExperiment", "tibble", "tidyr", "vegan", "viridis"],
|
|
"broken": true
|
|
},
|
|
"TimiRGeN": {
|
|
"name": "TimiRGeN",
|
|
"version": "1.11.0",
|
|
"sha256": "104j3rdl1mfklqvpsr753zlplr001cqbkphbhf2xrcfw8si7bgr2",
|
|
"depends": ["biomaRt", "clusterProfiler", "dplyr", "FreqProf", "ggdendro", "gghighlight", "ggplot2", "gplots", "gtools", "igraph", "Mfuzz", "MultiAssayExperiment", "RCy3", "readxl", "reshape2", "rWikiPathways", "scales", "stringr", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"TnT": {
|
|
"name": "TnT",
|
|
"version": "1.24.0",
|
|
"sha256": "1y4v2rphdils0rvkjsyfynncvmn1js1n5d5qhqmc2v8rhh1wjyv5",
|
|
"depends": ["Biobase", "data_table", "GenomeInfoDb", "GenomicRanges", "htmlwidgets", "IRanges", "jsonlite", "knitr", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"TraRe": {
|
|
"name": "TraRe",
|
|
"version": "1.5.0",
|
|
"sha256": "06w5rk2wjam5dhiya9n6kjbjahw4i46cb05zvakcy0f8gwrvb9ic",
|
|
"depends": ["BiocParallel", "dqrng", "ggplot2", "glmnet", "gplots", "gtools", "hash", "igraph", "matrixStats", "pvclust", "R_utils", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"Travel": {
|
|
"name": "Travel",
|
|
"version": "1.6.0",
|
|
"sha256": "074v9hl4gzy8081mlas3mjaplchjrmk2bl4f5nkdjclh46xf3wgg",
|
|
"depends": ["Rcpp"],
|
|
"broken": true
|
|
},
|
|
"XCIR": {
|
|
"name": "XCIR",
|
|
"version": "1.7.0",
|
|
"sha256": "0n42pw01wv1sk06hby9kwijx6zwaw4lrlpsa0wlkrkf323slkllw",
|
|
"depends": ["biomaRt", "data_table", "ggplot2", "IRanges", "readxl", "S4Vectors", "seqminer", "VariantAnnotation"],
|
|
"broken": true
|
|
},
|
|
"affyPara": {
|
|
"name": "affyPara",
|
|
"version": "1.51.0",
|
|
"sha256": "01165f84snc3ksk0ghw631i2l5jklp4n826jwy5926wvxy3zlwz0",
|
|
"depends": ["affy", "affyio", "aplpack", "snow", "vsn"],
|
|
"broken": true
|
|
},
|
|
"alpine": {
|
|
"name": "alpine",
|
|
"version": "1.26.0",
|
|
"sha256": "1md4m9ln1mpxf7d2h7jnsjyi4zrviiqn9fzk1gkz2n6qj7jwpqbb",
|
|
"depends": ["Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "graph", "IRanges", "RBGL", "Rsamtools", "S4Vectors", "speedglm", "stringr", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"alsace": {
|
|
"name": "alsace",
|
|
"version": "1.30.0",
|
|
"sha256": "17adr64g3l2syj0shi57nrvx105w7wrkiqm0qp3hwlk1ivmnadzn",
|
|
"depends": ["ALS", "ptw"],
|
|
"broken": true
|
|
},
|
|
"beadarraySNP": {
|
|
"name": "beadarraySNP",
|
|
"version": "1.68.0",
|
|
"sha256": "1vrizh7fpzv1w2gki0qxhphrfj1jj6m6bjsjsbw0b4n4invybzps",
|
|
"depends": ["Biobase", "quantsmooth"],
|
|
"broken": true
|
|
},
|
|
"bigPint": {
|
|
"name": "bigPint",
|
|
"version": "1.15.0",
|
|
"sha256": "1r9gr5f9as09ifagal5k7713h95qjw508cf8ny3j1jmqd24v6xhs",
|
|
"depends": ["DelayedArray", "dplyr", "GGally", "ggplot2", "gridExtra", "hexbin", "Hmisc", "htmlwidgets", "plotly", "plyr", "RColorBrewer", "reshape", "shiny", "shinycssloaders", "shinydashboard", "stringr", "SummarizedExperiment", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"biodbMirbase": {
|
|
"name": "biodbMirbase",
|
|
"version": "1.5.0",
|
|
"sha256": "17clip9l8as9pz390bqgj07jxp1rijis2f5hj53s6vqaqmiyz4il",
|
|
"depends": ["biodb", "chk", "R6", "stringr"],
|
|
"broken": true
|
|
},
|
|
"brainflowprobes": {
|
|
"name": "brainflowprobes",
|
|
"version": "1.16.0",
|
|
"sha256": "06gga72ns7h9c6mdbvbj8afpkyizg7maazriilvaq433h6s1pgqb",
|
|
"depends": ["Biostrings", "BSgenome_Hsapiens_UCSC_hg19", "bumphunter", "cowplot", "derfinder", "derfinderPlot", "GenomicRanges", "GenomicState", "ggplot2", "RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"bridge": {
|
|
"name": "bridge",
|
|
"version": "1.62.0",
|
|
"sha256": "02rf15f3r1kazxml8mk9mi1zxgglsdfrpbg7ny9w0s65f413grg8",
|
|
"depends": ["rama"],
|
|
"broken": true
|
|
},
|
|
"caOmicsV": {
|
|
"name": "caOmicsV",
|
|
"version": "1.25.0",
|
|
"sha256": "10i4imjihmssdwfys21fsqng8zfp7sxzkc58m8qmnh6s5sccb3sz",
|
|
"depends": ["bc3net", "igraph"],
|
|
"broken": true
|
|
},
|
|
"cellTree": {
|
|
"name": "cellTree",
|
|
"version": "1.27.0",
|
|
"sha256": "0yfr59fcbdj03ikkpvw1qcxqrjbkz7nkfmb5m1xr4k9qs39bq9sb",
|
|
"depends": ["gplots", "igraph", "maptpx", "slam", "topGO", "topicmodels", "xtable"],
|
|
"broken": true
|
|
},
|
|
"chromswitch": {
|
|
"name": "chromswitch",
|
|
"version": "1.22.0",
|
|
"sha256": "007wa8980hkpja33ph3b3fjsjrf91cnwc0a7y4014k8xxmmgfdh7",
|
|
"depends": ["Biobase", "BiocParallel", "cluster", "dplyr", "GenomicRanges", "gplots", "IRanges", "lazyeval", "magrittr", "matrixStats", "NMF", "rtracklayer", "S4Vectors", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"clonotypeR": {
|
|
"name": "clonotypeR",
|
|
"version": "1.34.0",
|
|
"sha256": "15nnj6c23bcnln1xsmxs7f13m13lvn6did7lvp7ij8gcb0vg2g6q",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"coMET": {
|
|
"name": "coMET",
|
|
"version": "1.34.0",
|
|
"sha256": "1pkhnfcvrbj9y88qbbvly4arbz22x8zkx0jsvsmn5klg4xp11fdz",
|
|
"depends": ["biomaRt", "corrplot", "GenomicRanges", "gridExtra", "Gviz", "hash", "IRanges", "psych", "rtracklayer", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"coexnet": {
|
|
"name": "coexnet",
|
|
"version": "1.19.1",
|
|
"sha256": "0zw8a8pqmajqnv5n6i7fn7krwax81sd4c6wqm4zr61fy2blqzv3h",
|
|
"depends": ["acde", "affy", "Biobase", "GEOquery", "igraph", "limma", "minet", "rmarkdown", "siggenes", "STRINGdb", "SummarizedExperiment", "vsn"],
|
|
"broken": true
|
|
},
|
|
"compartmap": {
|
|
"name": "compartmap",
|
|
"version": "1.18.0",
|
|
"sha256": "0lvgwnp5cgn96m9y4snpczfbfs72lxbaa36lnmwa7j07jy4s9108",
|
|
"depends": ["BiocSingular", "DelayedArray", "DelayedMatrixStats", "GenomicRanges", "ggplot2", "HDF5Array", "Matrix", "RaggedExperiment", "reshape2", "RMTstat", "rtracklayer", "scales", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"conclus": {
|
|
"name": "conclus",
|
|
"version": "1.5.0",
|
|
"sha256": "09rk73sxqxsy0zq07n67jxqbzb1rlxlj0phg6987szdjwxmag6jc",
|
|
"depends": ["AnnotationDbi", "Biobase", "BiocFileCache", "biomaRt", "clusterProfiler", "dbscan", "doParallel", "dplyr", "factoextra", "foreach", "fpc", "GEOquery", "ggplot2", "gridExtra", "org_Hs_eg_db", "org_Mm_eg_db", "pheatmap", "rlang", "Rtsne", "scales", "scater", "scran", "SingleCellExperiment", "stringr", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"contiBAIT": {
|
|
"name": "contiBAIT",
|
|
"version": "1.30.0",
|
|
"sha256": "1asyfx0mbg0pli2g533xmlppfw0s0f1y4vf2rfrnai4chsh1rh0k",
|
|
"depends": ["BH", "BiocGenerics", "BiocParallel", "clue", "cluster", "colorspace", "data_table", "diagram", "DNAcopy", "exomeCopy", "GenomicAlignments", "GenomicFiles", "GenomicRanges", "ggplot2", "gplots", "gtools", "IRanges", "Rcpp", "reshape2", "Rsamtools", "rtracklayer", "S4Vectors", "TSP"],
|
|
"broken": true
|
|
},
|
|
"copynumber": {
|
|
"name": "copynumber",
|
|
"version": "1.38.0",
|
|
"sha256": "1a664bllaq9pbb5cpd01j919qirylvnm8qd49lwlz89jvqjdri19",
|
|
"depends": ["BiocGenerics", "GenomicRanges", "IRanges", "S4Vectors"],
|
|
"broken": true
|
|
},
|
|
"crisprseekplus": {
|
|
"name": "crisprseekplus",
|
|
"version": "1.26.0",
|
|
"sha256": "1ccz944jwlcnflrdh1aamfc5b03n6pys65b13f049f0x214vqg68",
|
|
"depends": ["AnnotationDbi", "BiocManager", "BSgenome", "CRISPRseek", "DT", "GenomicFeatures", "GenomicRanges", "GUIDEseq", "hash", "shiny", "shinyjs"],
|
|
"broken": true
|
|
},
|
|
"ctgGEM": {
|
|
"name": "ctgGEM",
|
|
"version": "1.7.0",
|
|
"sha256": "0hmapz96r024r3bws1wf0spd0i81viyma859y9nn93jrwxscrcdb",
|
|
"depends": ["Biobase", "BiocGenerics", "igraph", "Matrix", "monocle", "sincell", "SummarizedExperiment", "TSCAN"],
|
|
"broken": true
|
|
},
|
|
"dasper": {
|
|
"name": "dasper",
|
|
"version": "1.9.0",
|
|
"sha256": "095ldl40cay5n8lkp8y69lbmflhnbwm1b075s4zgpagn81awp0cn",
|
|
"depends": ["basilisk", "BiocFileCache", "BiocParallel", "data_table", "dplyr", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "ggplot2", "ggpubr", "ggrepel", "IRanges", "magrittr", "megadepth", "plyranges", "readr", "reticulate", "rtracklayer", "S4Vectors", "stringr", "SummarizedExperiment", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"deco": {
|
|
"name": "deco",
|
|
"version": "1.13.0",
|
|
"sha256": "0d4abif3v62cbas6hl7pfw8q8jihh7nsra76k9cm6kz54qw4fbnw",
|
|
"depends": ["ade4", "AnnotationDbi", "Biobase", "BiocParallel", "BiocStyle", "cluster", "foreign", "gdata", "ggplot2", "gplots", "gridExtra", "limma", "locfit", "made4", "RColorBrewer", "reshape2", "scatterplot3d", "sfsmisc", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"diffloop": {
|
|
"name": "diffloop",
|
|
"version": "1.24.0",
|
|
"sha256": "0v0jg9y08xzw775x2lm82ig1ag4wjf4z2l6a66zmk6qbn59dwj1g",
|
|
"depends": ["Biobase", "biomaRt", "data_table", "dplyr", "edgeR", "foreach", "GenomeInfoDb", "GenomicRanges", "ggplot2", "IRanges", "limma", "locfit", "matrixStats", "pbapply", "plyr", "readr", "reshape2", "rtracklayer", "S4Vectors", "statmod", "Sushi"],
|
|
"broken": true
|
|
},
|
|
"dpeak": {
|
|
"name": "dpeak",
|
|
"version": "1.12.0",
|
|
"sha256": "1fx2rrcqmjckk5kk3mfa56b1393b2c8sf566q95d8zmlsvkl03w5",
|
|
"depends": ["BSgenome", "IRanges", "MASS", "Rcpp"],
|
|
"broken": true
|
|
},
|
|
"dualKS": {
|
|
"name": "dualKS",
|
|
"version": "1.53.0",
|
|
"sha256": "16cfcylmmcj8x2808529lbpm7qbbrxygic0jkaglhqcdxgrqw3rw",
|
|
"depends": ["affy", "Biobase"],
|
|
"broken": true
|
|
},
|
|
"eegc": {
|
|
"name": "eegc",
|
|
"version": "1.26.0",
|
|
"sha256": "0m67zjsq2xzk292rp0hdlj8lbfgci2dsdb5hmn4b591fqawwsqbb",
|
|
"depends": ["AnnotationDbi", "clusterProfiler", "DESeq2", "DOSE", "edgeR", "ggplot2", "gplots", "igraph", "limma", "org_Hs_eg_db", "org_Mm_eg_db", "pheatmap", "R_utils", "S4Vectors", "sna", "wordcloud"],
|
|
"broken": true
|
|
},
|
|
"enrichTF": {
|
|
"name": "enrichTF",
|
|
"version": "1.18.0",
|
|
"sha256": "0lhmlxw7mpb76w2agm25v5qzxgf28wfw2xc0fnlqn2sbbfj295y9",
|
|
"depends": ["BiocGenerics", "BSgenome", "clusterProfiler", "GenomeInfoDb", "GenomicRanges", "ggplot2", "ggpubr", "heatmap3", "IRanges", "JASPAR2018", "magrittr", "motifmatchr", "pipeFrame", "R_utils", "rmarkdown", "rtracklayer", "S4Vectors", "TFBSTools"],
|
|
"broken": true
|
|
},
|
|
"epihet": {
|
|
"name": "epihet",
|
|
"version": "1.13.0",
|
|
"sha256": "1p5sgb438yj6h0fv0v17dhz1pl32vai5zcbmgpgagrd5829a6a7r",
|
|
"depends": ["data_table", "doParallel", "foreach", "GenomicRanges", "ggplot2", "igraph", "IRanges", "pheatmap", "qvalue", "ReactomePA", "Rtsne", "S4Vectors", "WGCNA"],
|
|
"broken": true
|
|
},
|
|
"exomeCopy": {
|
|
"name": "exomeCopy",
|
|
"version": "1.48.0",
|
|
"sha256": "1d3qkr05q8nl3fj0y4qib0q37pwjh004p746nnzk8fmms75l1p11",
|
|
"depends": ["GenomeInfoDb", "GenomicRanges", "IRanges", "Rsamtools"],
|
|
"broken": true
|
|
},
|
|
"exomePeak2": {
|
|
"name": "exomePeak2",
|
|
"version": "1.14.3",
|
|
"sha256": "1hvz18hlvljbv0cmdlxzvsl2ysb5m0c5qq2y8jxzsby3zxlqplph",
|
|
"depends": ["BiocGenerics", "BiocParallel", "Biostrings", "BSgenome", "DESeq2", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "ggplot2", "IRanges", "magrittr", "mclust", "Rsamtools", "rtracklayer", "S4Vectors", "speedglm", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"farms": {
|
|
"name": "farms",
|
|
"version": "1.52.0",
|
|
"sha256": "1w1bw8bglcmjsz83vc8s5wl1c58x2bvd365k984pxaw3xl9fj92j",
|
|
"depends": ["affy", "Biobase", "MASS"],
|
|
"broken": true
|
|
},
|
|
"fcoex": {
|
|
"name": "fcoex",
|
|
"version": "1.13.0",
|
|
"sha256": "085r5s5sqrj2701zk5kv3818ksxvxzd76lknzi6bk1svw4d3lsyc",
|
|
"depends": ["clusterProfiler", "data_table", "dplyr", "FCBF", "ggplot2", "ggrepel", "igraph", "intergraph", "Matrix", "network", "pathwayPCA", "progress", "scales", "SingleCellExperiment", "sna", "stringr"],
|
|
"broken": true
|
|
},
|
|
"flowCL": {
|
|
"name": "flowCL",
|
|
"version": "1.35.0",
|
|
"sha256": "1jxr0zn3fgm5nqishssxh332mmxfz3fc9zgshn0lbq4avxc2x128",
|
|
"depends": ["graph", "Rgraphviz"],
|
|
"broken": true
|
|
},
|
|
"flowMap": {
|
|
"name": "flowMap",
|
|
"version": "1.38.0",
|
|
"sha256": "1mjv55cg5q6gx32sn6h5aqzrpjb5awb6489j8dya56fbivjs7zxj",
|
|
"depends": ["abind", "ade4", "doParallel", "Matrix", "reshape2", "scales"],
|
|
"broken": true
|
|
},
|
|
"flowUtils": {
|
|
"name": "flowUtils",
|
|
"version": "1.59.0",
|
|
"sha256": "11x362dqb9mjlsbq6g1qkb8hhnkvm22z5s3wkgmpyy9kyifjkm26",
|
|
"depends": ["Biobase", "corpcor", "flowCore", "graph", "RUnit", "XML"],
|
|
"broken": true
|
|
},
|
|
"gaggle": {
|
|
"name": "gaggle",
|
|
"version": "1.70.0",
|
|
"sha256": "16jajl03nf8fk29vd4bkj4f1156258skkw3p884ad946ifvabznd",
|
|
"depends": ["graph", "rJava", "RUnit"],
|
|
"broken": true
|
|
},
|
|
"gaia": {
|
|
"name": "gaia",
|
|
"version": "2.39.0",
|
|
"sha256": "023mw2dy6dni7h7a1ild1y6l741kp9bmjzzfyi70jipji1jig4pa",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"genbankr": {
|
|
"name": "genbankr",
|
|
"version": "1.27.0",
|
|
"sha256": "0fv87cf2y10ijlb0g1x9g9wh95qyljqb1c7k1ihbnjcg36xkh8lc",
|
|
"depends": ["Biobase", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "IRanges", "rtracklayer", "S4Vectors", "VariantAnnotation"],
|
|
"broken": true
|
|
},
|
|
"genotypeeval": {
|
|
"name": "genotypeeval",
|
|
"version": "1.30.0",
|
|
"sha256": "0mi1d86i4v8gafwszy978n61s5pszrsmbh1in4nggdqwvwnvkqnl",
|
|
"depends": ["BiocGenerics", "BiocParallel", "GenomeInfoDb", "GenomicRanges", "ggplot2", "IRanges", "rtracklayer", "VariantAnnotation"],
|
|
"broken": true
|
|
},
|
|
"genphen": {
|
|
"name": "genphen",
|
|
"version": "1.24.0",
|
|
"sha256": "1m60qagcxviix4zjzfhvrwchbjq2clss6mivb8q07bcq369yw1b8",
|
|
"depends": ["Biostrings", "doParallel", "e1071", "foreach", "ranger", "Rcpp", "rPref", "rstan"],
|
|
"broken": true
|
|
},
|
|
"gpart": {
|
|
"name": "gpart",
|
|
"version": "1.13.0",
|
|
"sha256": "1518wjkaw22ckgpwl6si83bhijvib0r0kgs9s4das41f0ygi92sd",
|
|
"depends": ["AnnotationDbi", "biomaRt", "data_table", "GenomicRanges", "Homo_sapiens", "igraph", "IRanges", "OrganismDbi", "Rcpp", "TxDb_Hsapiens_UCSC_hg38_knownGene"],
|
|
"broken": true
|
|
},
|
|
"gprege": {
|
|
"name": "gprege",
|
|
"version": "1.39.0",
|
|
"sha256": "12yjyb7a7jc86hdi3a3cavqxfzkhmds1m2vigzw5ihhx6028pa78",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"imageHTS": {
|
|
"name": "imageHTS",
|
|
"version": "1.48.0",
|
|
"sha256": "124pksw08b88bj7l8pckzvgk6sf54d633cnbq2r5il7a09i4caim",
|
|
"depends": ["Biobase", "cellHTS2", "e1071", "EBImage", "hwriter", "vsn"],
|
|
"broken": true
|
|
},
|
|
"inveRsion": {
|
|
"name": "inveRsion",
|
|
"version": "1.43.0",
|
|
"sha256": "0h2q10xf4x22hy7780w4pvq488921wzjngly8qcc97sa8iacssk3",
|
|
"depends": ["haplo_stats"],
|
|
"broken": true
|
|
},
|
|
"iterClust": {
|
|
"name": "iterClust",
|
|
"version": "1.24.0",
|
|
"sha256": "0k2hcc7g4ynd9jrk8f286y6gwc4bfs4bnfs8qpj2i8zamwdaldng",
|
|
"depends": ["Biobase", "cluster"],
|
|
"broken": true
|
|
},
|
|
"iteremoval": {
|
|
"name": "iteremoval",
|
|
"version": "1.15.1",
|
|
"sha256": "0bwl8lzxvf5azwyacv9x16l4kyi8l00xny2s83gp2kng5gyz8602",
|
|
"depends": ["GenomicRanges", "ggplot2", "magrittr", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"logitT": {
|
|
"name": "logitT",
|
|
"version": "1.58.0",
|
|
"sha256": "0wd26k2n29i58iz9nr50xjsvc2s5ynbca0y2y4j9xqbvvpfjzk3v",
|
|
"depends": ["affy"],
|
|
"broken": true
|
|
},
|
|
"mAPKL": {
|
|
"name": "mAPKL",
|
|
"version": "1.28.0",
|
|
"sha256": "0nj2r54djps19lar2sp6bhdi5nkid195xyaqzzam2r7piwr8xv8s",
|
|
"depends": ["AnnotationDbi", "apcluster", "Biobase", "clusterSim", "e1071", "igraph", "limma", "multtest", "parmigene", "reactome_db"],
|
|
"broken": true
|
|
},
|
|
"maanova": {
|
|
"name": "maanova",
|
|
"version": "1.68.2",
|
|
"sha256": "1rcxvv0vcvksswjd3vry68nmvrbh05p5pica48bwcar93jh70bx9",
|
|
"depends": ["Biobase"],
|
|
"broken": true
|
|
},
|
|
"macat": {
|
|
"name": "macat",
|
|
"version": "1.76.0",
|
|
"sha256": "1xmlh1bnhaxp2zjimrhyzz0ldl2sv4j0lrrvqdhlk8jbm5j4hzy8",
|
|
"depends": ["annotate", "Biobase"],
|
|
"broken": true
|
|
},
|
|
"maigesPack": {
|
|
"name": "maigesPack",
|
|
"version": "1.64.0",
|
|
"sha256": "106idgazh2wkv2z63wrbn6f4gaxzkmn95i8583a99f6mqnfbhcqx",
|
|
"depends": ["convert", "graph", "limma", "marray"],
|
|
"broken": true
|
|
},
|
|
"mbOmic": {
|
|
"name": "mbOmic",
|
|
"version": "1.3.0",
|
|
"sha256": "079qs5apyqli7h16c6drmhibmc356rnllxks5ddfnnq7hdzmhdbw",
|
|
"depends": ["cluster", "clusterSim", "data_table", "doParallel", "igraph", "psych", "visNetwork", "WGCNA"],
|
|
"broken": true
|
|
},
|
|
"metagene": {
|
|
"name": "metagene",
|
|
"version": "2.31.0",
|
|
"sha256": "0kydqb2g1xbkwk5g738f1pyx1hcfmym3z101vawvcjmmgld3kcp8",
|
|
"depends": ["BiocParallel", "data_table", "EnsDb_Hsapiens_v86", "ensembldb", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "ggplot2", "gplots", "IRanges", "magrittr", "matrixStats", "purrr", "R6", "Rsamtools", "rtracklayer", "stringr"],
|
|
"broken": true
|
|
},
|
|
"metavizr": {
|
|
"name": "metavizr",
|
|
"version": "1.21.0",
|
|
"sha256": "1d88f854sn5m2pklsyvkmq05yzjanxlnkz5gpzban62qq1mpvims",
|
|
"depends": ["Biobase", "data_table", "digest", "epivizr", "epivizrData", "epivizrServer", "epivizrStandalone", "GenomeInfoDb", "httr", "metagenomeSeq", "phyloseq", "vegan"],
|
|
"broken": true
|
|
},
|
|
"methyAnalysis": {
|
|
"name": "methyAnalysis",
|
|
"version": "1.34.0",
|
|
"sha256": "05k3n7iy5ijidbnblbqqas8dsj8drwzbhyrbs8wl1ypkg51havi0",
|
|
"depends": ["annotate", "AnnotationDbi", "Biobase", "BiocGenerics", "biomaRt", "genefilter", "GenomeInfoDb", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "lumi", "methylumi", "org_Hs_eg_db", "rtracklayer", "SummarizedExperiment", "VariantAnnotation"],
|
|
"broken": true
|
|
},
|
|
"miRBaseConverter": {
|
|
"name": "miRBaseConverter",
|
|
"version": "1.24.0",
|
|
"sha256": "04yjfi670lqk4c254isadzaj1mp514i4ns9h7mwdyvagfq6vhsvw",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"miRmine": {
|
|
"name": "miRmine",
|
|
"version": "1.22.0",
|
|
"sha256": "1d0ni3lavpiv2qzwlmrsjym75cip3i9q1bg9rwa04h61rz2smylg",
|
|
"depends": ["SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"multiOmicsViz": {
|
|
"name": "multiOmicsViz",
|
|
"version": "1.24.0",
|
|
"sha256": "129k094ml403w25k3kipzbavx78p14jxq40a8d733qyqp8mcnlrs",
|
|
"depends": ["doParallel", "foreach", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"multiSight": {
|
|
"name": "multiSight",
|
|
"version": "1.7.0",
|
|
"sha256": "1v2ml1qh250lidm5a0xw4b3xbxd2as86p703qn5s8m1xi6l89b9c",
|
|
"depends": ["anyLib", "biosigner", "caret", "clusterProfiler", "config", "DESeq2", "dplyr", "DT", "easyPubMed", "enrichplot", "ggnewscale", "golem", "htmltools", "igraph", "infotheo", "metap", "mixOmics", "networkD3", "ppcor", "R6", "ReactomePA", "rmarkdown", "rWikiPathways", "shiny", "shinydashboard", "stringr"],
|
|
"broken": true
|
|
},
|
|
"nanotatoR": {
|
|
"name": "nanotatoR",
|
|
"version": "1.18.0",
|
|
"sha256": "1nnh4g4b7k6mp922pr52sxlrh6wvfyx7jhckmwrd12l1yjq010pb",
|
|
"depends": ["AnnotationDbi", "curl", "dplyr", "GenomicRanges", "hash", "httr", "knitr", "openxlsx", "org_Hs_eg_db", "rentrez", "rlang", "stringr", "testthat", "tidyverse", "XML"],
|
|
"broken": true
|
|
},
|
|
"netOmics": {
|
|
"name": "netOmics",
|
|
"version": "1.8.0",
|
|
"sha256": "03nyjvcr2hldsfifj0dix1bc79z05i9x2hgc5z2g9hd1jyijljyd",
|
|
"depends": ["AnnotationDbi", "dplyr", "ggplot2", "GO_db", "gprofiler2", "igraph", "magrittr", "minet", "purrr", "RandomWalkRestartMH", "tibble", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"netbiov": {
|
|
"name": "netbiov",
|
|
"version": "1.36.0",
|
|
"sha256": "0igqb3wdxvjrbh4w664934yycac3qwcyfhmsz4cf2h5rif23xagf",
|
|
"depends": ["igraph"],
|
|
"broken": true
|
|
},
|
|
"netboxr": {
|
|
"name": "netboxr",
|
|
"version": "1.9.0",
|
|
"sha256": "1brnm60745s2axls4p6qcxipjjr3ph9ijg1q604fgm42rf6i7qzm",
|
|
"depends": ["clusterProfiler", "data_table", "DT", "gplots", "igraph", "jsonlite", "plyr", "RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"networkBMA": {
|
|
"name": "networkBMA",
|
|
"version": "2.35.0",
|
|
"sha256": "0xa0b977apbr6p9kqk38582af635kp99csj32bsn2bf8pjsmd4d2",
|
|
"depends": ["BH", "BMA", "leaps", "Rcpp", "RcppArmadillo", "RcppEigen"],
|
|
"broken": true
|
|
},
|
|
"nondetects": {
|
|
"name": "nondetects",
|
|
"version": "2.32.0",
|
|
"sha256": "0302mg5pbvbzp9rhm6wg4lfa7c7lkndysx35x8b1zskc4b1v76cv",
|
|
"depends": ["arm", "Biobase", "HTqPCR", "limma", "mvtnorm"],
|
|
"broken": true
|
|
},
|
|
"oneSENSE": {
|
|
"name": "oneSENSE",
|
|
"version": "1.20.0",
|
|
"sha256": "1lzb8i3frv3va2q28glwnjwszrynhky5y8fx10q4h52p2wqgc4v3",
|
|
"depends": ["flowCore", "gplots", "plotly", "Rtsne", "scatterplot3d", "shiny", "shinyFiles", "webshot"],
|
|
"broken": true
|
|
},
|
|
"pathVar": {
|
|
"name": "pathVar",
|
|
"version": "1.30.0",
|
|
"sha256": "1q0m4yb4jvi61f3hl7mpbnl9y0y4pqhspi1gn3wp5lf86j8c40jp",
|
|
"depends": ["data_table", "EMT", "ggplot2", "gridExtra", "Matching", "mclust"],
|
|
"broken": true
|
|
},
|
|
"perturbatr": {
|
|
"name": "perturbatr",
|
|
"version": "1.13.0",
|
|
"sha256": "0ssk8cr42hibn917s2z2nzcdan54c7xiydypbi8f3g4w68q4ly31",
|
|
"depends": ["assertthat", "diffusr", "doParallel", "dplyr", "foreach", "formula_tools", "ggplot2", "igraph", "lazyeval", "lme4", "magrittr", "rlang", "scales", "tibble", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"phemd": {
|
|
"name": "phemd",
|
|
"version": "1.18.0",
|
|
"sha256": "174jp26insq2mwf9yw9bls4i9b2a8vccfkrg2h1dzvyyk513bi83",
|
|
"depends": ["Biobase", "BiocGenerics", "cluster", "cowplot", "destiny", "ggplot2", "igraph", "maptree", "monocle", "phateR", "pheatmap", "pracma", "RANN", "RColorBrewer", "reticulate", "Rtsne", "S4Vectors", "scatterplot3d", "Seurat", "SingleCellExperiment", "SummarizedExperiment", "transport", "VGAM"],
|
|
"broken": true
|
|
},
|
|
"pkgDepTools": {
|
|
"name": "pkgDepTools",
|
|
"version": "1.63.0",
|
|
"sha256": "10q0z1ps073py82zqii4sfdhnpvcyj4sx1yx3lzy5c41l8py6lag",
|
|
"depends": ["graph", "RBGL"],
|
|
"broken": true
|
|
},
|
|
"plethy": {
|
|
"name": "plethy",
|
|
"version": "1.36.0",
|
|
"sha256": "09929w6rd84hvz6fiydd5v0php9gvbvxgvsnxvkzwyxfmmmx1dzr",
|
|
"depends": ["Biobase", "BiocGenerics", "DBI", "ggplot2", "IRanges", "plyr", "RColorBrewer", "reshape2", "RSQLite", "S4Vectors", "Streamer"],
|
|
"broken": true
|
|
},
|
|
"ppiStats": {
|
|
"name": "ppiStats",
|
|
"version": "1.62.0",
|
|
"sha256": "0w5gkfah2y50x4wj5fn8i6ycx1x013mn9w4bs8r2vfqabpws1a81",
|
|
"depends": ["Biobase", "Category", "graph", "lattice", "RColorBrewer"],
|
|
"broken": true
|
|
},
|
|
"predictionet": {
|
|
"name": "predictionet",
|
|
"version": "1.40.0",
|
|
"sha256": "1f3ghlcfnls9mx2hbs923rdz7kn0wdhy2csp1y1286c5q5dybrgh",
|
|
"depends": ["catnet", "igraph", "MASS", "penalized", "RBGL"],
|
|
"broken": true
|
|
},
|
|
"proBatch": {
|
|
"name": "proBatch",
|
|
"version": "1.14.0",
|
|
"sha256": "079dh61v1dmsasrh5sn6sn1rgi34mavxa1sc1y8x6wqjwabm4w1j",
|
|
"depends": ["Biobase", "corrplot", "data_table", "dplyr", "ggfortify", "ggplot2", "lazyeval", "lubridate", "magrittr", "pheatmap", "preprocessCore", "purrr", "pvca", "RColorBrewer", "reshape2", "rlang", "scales", "sva", "tibble", "tidyr", "viridis", "wesanderson", "WGCNA"],
|
|
"broken": true
|
|
},
|
|
"proFIA": {
|
|
"name": "proFIA",
|
|
"version": "1.23.0",
|
|
"sha256": "0y08vj401f45dvgxjwjx94hvd0rk1wljk8n1irpkdafg24gv4fvj",
|
|
"depends": ["Biobase", "BiocParallel", "minpack_lm", "missForest", "pracma", "ropls", "xcms"],
|
|
"broken": true
|
|
},
|
|
"proteasy": {
|
|
"name": "proteasy",
|
|
"version": "1.2.0",
|
|
"sha256": "1mfk69k44krdj4wp6xpil391j9jrppyx1crvra525p8hahzc2d5m",
|
|
"depends": ["AnnotationFilter", "data_table", "EnsDb_Hsapiens_v86", "EnsDb_Mmusculus_v79", "EnsDb_Rnorvegicus_v79", "ensembldb", "Rcpi", "stringr"],
|
|
"broken": true
|
|
},
|
|
"pulsedSilac": {
|
|
"name": "pulsedSilac",
|
|
"version": "1.9.1",
|
|
"sha256": "1zb8xzs9h4rcrnmsfvrwb1qixn3jbnzxdwqgdrb82hgmxabmajlb",
|
|
"depends": ["cowplot", "ggplot2", "ggridges", "MuMIn", "R_utils", "robustbase", "S4Vectors", "SummarizedExperiment", "UpSetR"],
|
|
"broken": true
|
|
},
|
|
"pwrEWAS": {
|
|
"name": "pwrEWAS",
|
|
"version": "1.14.0",
|
|
"sha256": "1913h2syad9mfspxjvmrwm0mrcklbcl89lj04rn5x0xgfk8rk58a",
|
|
"depends": ["abind", "BiocManager", "CpGassoc", "doParallel", "doSNOW", "foreach", "genefilter", "ggplot2", "limma", "pwrEWAS_data", "shiny", "shinyBS", "shinyWidgets", "truncnorm"],
|
|
"broken": true
|
|
},
|
|
"qrqc": {
|
|
"name": "qrqc",
|
|
"version": "1.52.0",
|
|
"sha256": "0411477y7nazlwbz3pfszr1wfas6qd0g0iz0p9pmq16dw8pzkgg6",
|
|
"depends": ["Biostrings", "biovizBase", "brew", "ggplot2", "plyr", "reshape", "Rhtslib", "testthat", "xtable"],
|
|
"broken": true
|
|
},
|
|
"rama": {
|
|
"name": "rama",
|
|
"version": "1.72.0",
|
|
"sha256": "0i6crxnzhwxnc55xh2rv36jfwh4bd30alw1f05ixdrxwqwsslbpy",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"restfulSE": {
|
|
"name": "restfulSE",
|
|
"version": "1.24.0",
|
|
"sha256": "0i40yfvynxy34jfkvzyvjwvxf89zi4pvy9m9i0bk93l17gyhnjyl",
|
|
"depends": ["AnnotationDbi", "AnnotationHub", "bigrquery", "Biobase", "DBI", "DelayedArray", "dplyr", "ExperimentHub", "GO_db", "magrittr", "reshape2", "rhdf5client", "rlang", "S4Vectors", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"rqt": {
|
|
"name": "rqt",
|
|
"version": "1.28.0",
|
|
"sha256": "02yvwp68c0xx1wa41hfwmq5zjskqk3jg6z1hvivi6x3l5g2xfwah",
|
|
"depends": ["car", "CompQuadForm", "glmnet", "Matrix", "metap", "pls", "ropls", "RUnit", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"savR": {
|
|
"name": "savR",
|
|
"version": "1.37.0",
|
|
"sha256": "13wiw7isdmpwhynxjrhimy9yglcz1108k7nwa98vq9czq49zpada",
|
|
"depends": ["ggplot2", "gridExtra", "reshape2", "scales", "XML"],
|
|
"broken": true
|
|
},
|
|
"scAlign": {
|
|
"name": "scAlign",
|
|
"version": "1.12.0",
|
|
"sha256": "1mlhxwsfrmhysa5mcyx7vf2jn49snf41yb7xqmyi40wilj9h8qlb",
|
|
"depends": ["FNN", "ggplot2", "irlba", "purrr", "Rtsne", "Seurat", "SingleCellExperiment", "tensorflow"],
|
|
"broken": true
|
|
},
|
|
"scClassifR": {
|
|
"name": "scClassifR",
|
|
"version": "1.2.0",
|
|
"sha256": "0p9l9q5ina0axrqvqn1y5wkfqi0nacxm3nm6ny34j53znv07b2zz",
|
|
"depends": ["ape", "caret", "data_tree", "dplyr", "e1071", "ggplot2", "kernlab", "pROC", "ROCR", "Seurat", "SingleCellExperiment", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"scMAGeCK": {
|
|
"name": "scMAGeCK",
|
|
"version": "1.9.1",
|
|
"sha256": "1i6l8jxrd66aqk3m9212wsi8jqklvs0agsqrllvf9mrh16js4vby",
|
|
"depends": ["ggplot2", "Seurat"],
|
|
"broken": true
|
|
},
|
|
"seqCNA": {
|
|
"name": "seqCNA",
|
|
"version": "1.48.0",
|
|
"sha256": "0qqkpgpjj2rywr1y1qj3ffjlxak7fg15jkznz62r7k6r794z45ma",
|
|
"depends": ["adehabitatLT", "doSNOW", "GLAD", "seqCNA_annot"],
|
|
"broken": true
|
|
},
|
|
"seqbias": {
|
|
"name": "seqbias",
|
|
"version": "1.50.0",
|
|
"sha256": "18pdpi855y1hhka96xc5886nqffjn1jhz9jr9p305iikdrsvmjp1",
|
|
"depends": ["Biostrings", "GenomicRanges", "Rhtslib", "zlibbioc"],
|
|
"broken": true
|
|
},
|
|
"sigPathway": {
|
|
"name": "sigPathway",
|
|
"version": "1.66.2",
|
|
"sha256": "0k86hlz7zbbw7559bd2sl59pr441kihgwvg8nr75mj8d50n783sy",
|
|
"depends": [],
|
|
"broken": true
|
|
},
|
|
"slinky": {
|
|
"name": "slinky",
|
|
"version": "1.12.0",
|
|
"sha256": "05ywydvyz3jnzbhabhz1sd61hpy9nb22512zpbi48mv5wic1sv3v",
|
|
"depends": ["curl", "dplyr", "foreach", "httr", "jsonlite", "readr", "rhdf5", "SummarizedExperiment", "tidyr"],
|
|
"broken": true
|
|
},
|
|
"snapCGH": {
|
|
"name": "snapCGH",
|
|
"version": "1.72.0",
|
|
"sha256": "0knjspxzc3z5dhx0a6kx9rkic85w65l84vy552x5bv8jzxkcwrsj",
|
|
"depends": ["aCGH", "cluster", "DNAcopy", "GLAD", "limma", "tilingArray"],
|
|
"broken": true
|
|
},
|
|
"sojourner": {
|
|
"name": "sojourner",
|
|
"version": "1.11.0",
|
|
"sha256": "1s0iqzn65s9g4yymy059z122i9wvgkcb5718snzxhj7mkqjzwhhc",
|
|
"depends": ["dplyr", "EBImage", "fitdistrplus", "ggplot2", "gridExtra", "lattice", "MASS", "mclust", "minpack_lm", "mixtools", "mltools", "nls2", "pixmap", "plyr", "R_matlab", "Rcpp", "reshape2", "rlang", "scales", "shiny", "shinyjs", "sp", "truncnorm"],
|
|
"broken": true
|
|
},
|
|
"sparseDOSSA": {
|
|
"name": "sparseDOSSA",
|
|
"version": "1.24.0",
|
|
"sha256": "1xy9kd5a9vilwkgr4xw6lcdwgwykg7q7kildpfw4gqymd1frnjp6",
|
|
"depends": ["MASS", "MCMCpack", "optparse", "tmvtnorm"],
|
|
"broken": true
|
|
},
|
|
"sscore": {
|
|
"name": "sscore",
|
|
"version": "1.72.0",
|
|
"sha256": "02y684iaryms7099k9idrvw0my52jj3d4hl949ai1jknaa19hmil",
|
|
"depends": ["affy", "affyio"],
|
|
"broken": true
|
|
},
|
|
"tofsims": {
|
|
"name": "tofsims",
|
|
"version": "1.22.0",
|
|
"sha256": "0da4843wbcr821yp8z3z4vd81qpm2lblckgd01fm89lmwj393z65",
|
|
"depends": ["ALS", "alsace", "KernSmooth", "ProtGenerics", "Rcpp", "RcppArmadillo", "signal"],
|
|
"broken": true
|
|
},
|
|
"trena": {
|
|
"name": "trena",
|
|
"version": "1.22.2",
|
|
"sha256": "1xjhqm2g53kgcnnqhs5l3vn525h7amaz4hvsskjp5zb0gkfpiwh1",
|
|
"depends": ["AnnotationDbi", "biomaRt", "Biostrings", "BSgenome", "BSgenome_Hsapiens_UCSC_hg19", "BSgenome_Hsapiens_UCSC_hg38", "BSgenome_Mmusculus_UCSC_mm10", "DBI", "GenomicRanges", "glmnet", "lassopv", "MotifDb", "org_Hs_eg_db", "randomForest", "RMySQL", "RPostgreSQL", "RSQLite", "SNPlocs_Hsapiens_dbSNP150_GRCh38", "WGCNA", "xgboost"],
|
|
"broken": true
|
|
},
|
|
"tscR": {
|
|
"name": "tscR",
|
|
"version": "1.11.0",
|
|
"sha256": "19jpmyb6dly7l0418c1z0dlb936wjh6nwkb0mvk13ym19qgv1my7",
|
|
"depends": ["class", "cluster", "dplyr", "dtw", "GenomicRanges", "ggplot2", "gridExtra", "IRanges", "knitr", "latex2exp", "prettydoc", "RColorBrewer", "rmarkdown", "S4Vectors", "SummarizedExperiment"],
|
|
"broken": true
|
|
},
|
|
"tspair": {
|
|
"name": "tspair",
|
|
"version": "1.53.0",
|
|
"sha256": "04xxrm313mnknhc38vl1sx6hic2g1x1xaa5772qlc7ip957hz85k",
|
|
"depends": ["Biobase"],
|
|
"broken": true
|
|
},
|
|
"unifiedWMWqPCR": {
|
|
"name": "unifiedWMWqPCR",
|
|
"version": "1.38.0",
|
|
"sha256": "0v3jpnm3nq66xvckmc8447xl7wngfhhiwq6vjx54wgc6f586vmgd",
|
|
"depends": ["BiocGenerics", "HTqPCR"],
|
|
"broken": true
|
|
}
|
|
}
|
|
}
|