nixpkgs/pkgs/development/r-modules/bioc-packages.json

{
  "extraArgs": {
    "biocVersion": "3.19"
  },
  "packages": {
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      "name": "ABSSeq",
      "version": "1.58.0",
      "sha256": "0zqb2w055x4whgl3mljarsnps6lkz90fwlx2lnirbnrgmlnalwjz",
      "depends": ["limma", "locfit"]
    },
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      "name": "ABarray",
      "version": "1.72.0",
      "sha256": "1kfqq4df55pxl7gnwf24aaryxijym4gzqfjyif28arlbjci9hlv6",
      "depends": ["Biobase", "multtest"]
    },
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      "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",
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      "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",
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      "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",
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      "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",
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      "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",
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      "sha256": "00s2rlkh5snqmvlz5a21ilmm0ngh4g362y7iayr6f78nh8gwp617",
      "depends": ["Biobase", "MASS", "RColorBrewer", "igraph", "survival"]
    },
    "APAlyzer": {
      "name": "APAlyzer",
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      "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",
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      "sha256": "0wg799c5pzw9g0dbkaa5j4jyccvixqbc8x3xnwk3cgi1dsbhpk34",
      "depends": ["ARRmData"]
    },
    "ASAFE": {
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      "sha256": "13qf4jvf0m6i46bwqxdhd4zllac370ckwnd9xh6p56r1lrgcl4sa",
      "depends": []
    },
    "ASEB": {
      "name": "ASEB",
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      "sha256": "1h5rgy2n7rxd72ypzwnfclw8h5hvdnac48fgbfll669z2k97dsmm",
      "depends": []
    },
    "ASGSCA": {
      "name": "ASGSCA",
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      "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",
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      "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",
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      "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",
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      "depends": ["BiocGenerics", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Matrix", "Rsamtools", "S4Vectors", "SummarizedExperiment", "TFBSTools", "dplyr", "ggplot2", "ggrepel", "limma", "motifmatchr", "pracma", "rtracklayer"]
    },
    "AUCell": {
      "name": "AUCell",
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      "sha256": "009ha82393giapvmfw2mi8pmi88f61mr69qj64y5vphcr1smvcl0",
      "depends": ["BiocGenerics", "DelayedArray", "DelayedMatrixStats", "GSEABase", "Matrix", "R_utils", "SummarizedExperiment", "data_table", "mixtools"]
    },
    "AWFisher": {
      "name": "AWFisher",
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      "depends": ["edgeR", "limma"]
    },
    "AffiXcan": {
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      "depends": ["BiocParallel", "MultiAssayExperiment", "SummarizedExperiment", "crayon"]
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    "AffyRNADegradation": {
      "name": "AffyRNADegradation",
      "version": "1.50.0",
      "sha256": "19lcs76jsdy5dz57rkdb8qqankpasrw2r5z4cy98q94az6582ix4",
      "depends": ["affy"]
    },
    "AgiMicroRna": {
      "name": "AgiMicroRna",
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      "depends": ["Biobase", "affy", "affycoretools", "limma", "preprocessCore"]
    },
    "AllelicImbalance": {
      "name": "AllelicImbalance",
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      "depends": ["AnnotationDbi", "BSgenome", "BiocGenerics", "Biostrings", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Gviz", "IRanges", "Rsamtools", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "gridExtra", "lattice", "latticeExtra", "nlme", "seqinr"]
    },
    "AlphaBeta": {
      "name": "AlphaBeta",
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      "depends": ["BiocParallel", "data_table", "dplyr", "expm", "ggplot2", "gtools", "igraph", "optimx", "plotly", "stringr"]
    },
    "AlphaMissenseR": {
      "name": "AlphaMissenseR",
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      "sha256": "1y8dzcrjqmqagnl4jiwcsfkj28n544j2d6li0ga6rrqmjwrnxzv0",
      "depends": ["BiocBaseUtils", "BiocFileCache", "DBI", "curl", "dplyr", "duckdb", "memoise", "rjsoncons", "rlang", "spdl", "whisker"]
    },
    "AlpsNMR": {
      "name": "AlpsNMR",
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    },
    "AnVIL": {
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    },
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    },
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      "depends": ["DESeq2", "ROCR", "ggplot2", "knitr", "locfit", "plyr", "qvalue"]
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    },
    "AnnotationDbi": {
      "name": "AnnotationDbi",
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      "depends": ["AnnotationDbi", "Biobase", "BiocGenerics", "DBI", "RCurl", "RSQLite", "S4Vectors", "XML"]
    },
    "AnnotationHub": {
      "name": "AnnotationHub",
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      "depends": ["AnnotationDbi", "BiocFileCache", "BiocGenerics", "BiocManager", "BiocVersion", "RSQLite", "S4Vectors", "curl", "dplyr", "httr", "rappdirs", "yaml"]
    },
    "AnnotationHubData": {
      "name": "AnnotationHubData",
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    },
    "ArrayExpress": {
      "name": "ArrayExpress",
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      "depends": ["Biobase", "breastCancerVDX"]
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    },
    "BASiCStan": {
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      "depends": ["BASiCS", "BH", "Rcpp", "RcppEigen", "RcppParallel", "SingleCellExperiment", "StanHeaders", "SummarizedExperiment", "glmGamPoi", "rstan", "rstantools", "scran", "scuttle"]
    },
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      "name": "BBCAnalyzer",
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      "depends": ["BSgenome", "Biostrings", "GenomicRanges", "ShortRead"]
    },
    "BERT": {
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