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nixpkgs/pkgs/development/r-modules/bioc-packages.json
Justin Bedo e061c6a434 rPackages: CRAN and BioC update
2026-07-26 08:39:39 +10:00

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{
"extraArgs": {
"biocVersion": "3.23"
},
"packages": {
"ABSSeq": {
"name": "ABSSeq",
"version": "1.66.0",
"sha256": "1knrgj3lqzds0vpwxa30d28ng3jwcwng3lykgq8gp9p32glzlwaa",
"depends": ["limma", "locfit"]
},
"ABarray": {
"name": "ABarray",
"version": "1.80.0",
"sha256": "1vvl8c2ljs551d2krd4kz3k8ik769q5ic07wab78qd537xzd142q",
"depends": ["Biobase", "multtest"]
},
"ACE": {
"name": "ACE",
"version": "1.30.0",
"sha256": "1cycpcxg0c5rrzp5fnqll04z6a1lv9h3ihkkcy4q98l6bdplkkrc",
"depends": ["Biobase", "GenomicRanges", "QDNAseq", "ggplot2"]
},
"ACME": {
"name": "ACME",
"version": "2.68.0",
"sha256": "0dnfb7f5ng0minl6p0m9g6l5is5cxlnhlnp40fv9zbyxlm142sk5",
"depends": ["Biobase", "BiocGenerics"]
},
"ADAM": {
"name": "ADAM",
"version": "1.28.0",
"sha256": "173wy9fkgz0z7irwy260q5vd733kp9cj2m1q4fgwqlbmcagc9jd9",
"depends": ["DT", "GO_db", "KEGGREST", "Rcpp", "SummarizedExperiment", "dplyr", "knitr", "pbapply", "stringr"]
},
"ADAMgui": {
"name": "ADAMgui",
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"sha256": "1ljipdxf5b5wakqmw1ap5b70jgpy10h270dwx3j24r3jy2fav6g3",
"depends": ["ADAM", "DT", "GO_db", "RColorBrewer", "colorRamps", "data_table", "dplyr", "ggplot2", "ggpubr", "ggrepel", "ggsignif", "gridExtra", "knitr", "reshape2", "shiny", "shinyjs", "stringi", "stringr", "testthat", "varhandle"]
},
"ADAPT": {
"name": "ADAPT",
"version": "1.6.0",
"sha256": "1wm6yz8w8vxhhg166gsbz5cbkz6dyic4mna3p79dbssap9ipsgzm",
"depends": ["Rcpp", "RcppArmadillo", "RcppParallel", "ggplot2", "ggrepel", "phyloseq"]
},
"ADImpute": {
"name": "ADImpute",
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"sha256": "0j5xjba36ari9h77iznwva6dbfjwrz8xjlzls877rf36snsirqb0",
"depends": ["BiocParallel", "DrImpute", "MASS", "Matrix", "S4Vectors", "SAVER", "SingleCellExperiment", "SummarizedExperiment", "checkmate", "data_table", "kernlab", "rsvd"]
},
"ADaCGH2": {
"name": "ADaCGH2",
"version": "2.52.0",
"sha256": "0b3cxs6yjs3wxk512d60zlix41pxypw49n9a5a9v7z48drp5akfv",
"depends": ["DNAcopy", "aCGH", "bit", "cluster", "ff", "tilingArray", "waveslim"]
},
"AGDEX": {
"name": "AGDEX",
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"sha256": "1lyji0svcn75ymjgagzam3v5876byqlrw0yyqdq1awcr3b0ma835",
"depends": ["Biobase", "GSEABase"]
},
"AHMassBank": {
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"depends": ["AnnotationHubData"]
},
"AIMS": {
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"depends": ["Biobase", "e1071"]
},
"ALDEx2": {
"name": "ALDEx2",
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"sha256": "1nrjmzahdvwfx0v55kk37lnhs49w2zppcvhhjkxvb41srhkriizp",
"depends": ["BiocParallel", "GenomicRanges", "IRanges", "Rfast", "S4Vectors", "SummarizedExperiment", "directlabels", "lattice", "latticeExtra", "multtest", "zCompositions"]
},
"AMARETTO": {
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"sha256": "16m3pz5bff8s89fh45afbc4mwvbk8l7027algw7zag7cl9fkvxly",
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},
"AMOUNTAIN": {
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"depends": []
},
"ANCOMBC": {
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"depends": ["DescTools", "Hmisc", "MASS", "Matrix", "Rdpack", "doParallel", "doRNG", "energy", "foreach", "gtools", "lme4", "lmerTest", "multcomp", "nloptr", "quadprog"]
},
"ANF": {
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"depends": ["Biobase", "MASS", "RColorBrewer", "igraph", "survival"]
},
"APAlyzer": {
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"depends": ["DESeq2", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "Rsamtools", "Rsubread", "S4Vectors", "SummarizedExperiment", "VariantAnnotation", "dplyr", "ggplot2", "ggrepel", "repmis", "rlang", "rtracklayer", "tidyr", "txdbmaker"]
},
"APL": {
"name": "APL",
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"depends": ["Matrix", "RSpectra", "SeuratObject", "SingleCellExperiment", "SummarizedExperiment", "ggplot2", "ggrepel", "magrittr", "org_Hs_eg_db", "org_Mm_eg_db", "plotly", "rlang", "topGO", "viridisLite"]
},
"ARRmNormalization": {
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"depends": ["ARRmData"]
},
"ASAFE": {
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},
"ASGSCA": {
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"depends": ["BiocParallel", "Matrix", "PepsNMR", "SummarizedExperiment", "ggplot2", "glmnet", "gridExtra", "mvtnorm", "plyr", "quadprog", "ropls", "zoo"]
},
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"depends": ["MASS", "msm", "rmeta"]
},
"ASSIGN": {
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"depends": ["Rlab", "ggplot2", "gplots", "msm", "sva", "yaml"]
},
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"depends": ["ComplexHeatmap", "Rcpp", "S4Vectors", "SingleCellExperiment", "SummarizedExperiment", "circlize", "cluster", "plot3D"]
},
"ASpli": {
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},
"ATACseqQC": {
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},
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},
"AUCell": {
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},
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},
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},
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},
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},
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},
"BASiCStan": {
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