{
  "_id": "6aca1594fe5cc25786e847d1",
  "Package": "GSVAdata",
  "Title": "Data employed in the vignette of the GSVA package",
  "Version": "1.49.2",
  "Author": "Robert Castelo <robert.castelo@upf.edu>",
  "Description": "This package stores the data employed in the vignette of\nthe GSVA package. These data belong to the following\npublications: Cahoy et al. J Neurosci 28:264-278, 2008; Carrel\nand Willard, Nature, 434:400-404, 2005; Huang et al. PNAS,\n104:9758-9763, 2007; Pickrell et al. Nature, 464:768-722, 2010;\nSkaletsky et al. Nature, 423:825-837; Verhaak et al. Cancer\nCell 17:98-110, 2010; Costa et al. FEBS J, 288:2311-2331, 2021.",
  "Maintainer": "Robert Castelo <robert.castelo@upf.edu>",
  "License": "Artistic-2.0",
  "biocViews": "ExperimentData, ExpressionData, SequencingData,\nHomo_sapiens_Data, CancerData, Tissue",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.3",
  "Config/pak/sysreqs": "libmagick++-dev gsfonts libicu-dev libpng-dev\nlibxml2-dev libssl-dev zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-07-25 16:11:42 UTC",
  "RemoteUrl": "https://github.com/bioc/GSVAdata",
  "RemoteRef": "HEAD",
  "RemoteSha": "96cffff0143c1503f869c08f0a9ed65efcc39b95",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-10 10:30:19 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "GSVAdata_1.49.2.tar.gz",
  "_fileid": "https://r2.ropensci.org/2f235375fadc51f57ddfab345439f638e93f91880495b837b042c5c2f8febf02",
  "_filesize": 15444567,
  "_sha256": "2f235375fadc51f57ddfab345439f638e93f91880495b837b042c5c2f8febf02",
  "_expires": "2027-01-18T10:38:08.000Z",
  "_created": "2026-10-10T10:30:19.000Z",
  "_published": "2026-10-10T10:38:11.899Z",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38044938419",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 3,
    "warning": 1,
    "note": 5
  },
  "_upstream": "https://github.com/bioc/GSVAdata",
  "_commit": {
    "id": "96cffff0143c1503f869c08f0a9ed65efcc39b95",
    "author": "Robert Castelo <robert.castelo@upf.edu>",
    "committer": "Robert Castelo <robert.castelo@upf.edu>",
    "message": "Bump version\n",
    "time": 1784995902
  },
  "_maintainer": {
    "name": "Robert Castelo",
    "email": "robert.castelo@upf.edu",
    "login": "rcastelo",
    "orcid": "0000-0003-2229-4508",
    "twitter": "@robertclab",
    "description": "biostatistics, machine learning, genetics, genomics, R/Bioconductor",
    "uuid": 1677433
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 114193213168,
      "time": 165,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11667048620"
    },
    {
      "job": 114193212901,
      "time": 372,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11666723242"
    },
    {
      "job": 114193212870,
      "time": 318,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11666687940"
    },
    {
      "job": 114192511212,
      "time": 242,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11667557597"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.0",
      "role": "Depends"
    },
    {
      "package": "Biobase",
      "role": "Depends"
    },
    {
      "package": "GSEABase",
      "role": "Depends"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "SpatialExperiment",
      "role": "Imports"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2025-45",
      "n": 1
    },
    {
      "week": "2026-15",
      "n": 1
    },
    {
      "week": "2026-16",
      "n": 1
    },
    {
      "week": "2026-18",
      "n": 2
    },
    {
      "week": "2026-29",
      "n": 1
    },
    {
      "week": "2026-30",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.49.2",
      "bioc": "3.24",
      "repository": "data/experiment"
    },
    {
      "branch": "release",
      "version": "1.48.1",
      "bioc": "3.23",
      "repository": "data/experiment"
    }
  ],
  "_topics": [
    "experimentdata",
    "expressiondata",
    "sequencingdata",
    "homo_sapiens_data",
    "cancerdata",
    "tissue",
    "datapkg"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 476,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_searchresults": 213,
  "_datapkg": true,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/GSVAdata.html",
    "extra/manual.pdf"
  ],
  "_cranurl": false,
  "_exports": [
    "HumanCerebellumNormSubset"
  ],
  "_datasets": [
    {
      "name": "annotEntrez220212",
      "title": "Annotation data on gene length and G+C content from NCBI",
      "object": "annotEntrez220212",
      "file": "annotEntrez220212.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Length",
        "GCcontent"
      ],
      "rows": 23662,
      "table": true,
      "tojson": true
    },
    {
      "name": "brainTxDbSets",
      "title": "Gene sets signatures of brain cell types",
      "object": "brainTxDbSets",
      "file": "brainTxDbSets.RData",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "c2BroadSets",
      "title": "C2 collection of canonical pathways from MSigDB 3.0",
      "object": "c2BroadSets",
      "file": "c2BroadSets.RData",
      "class": [
        "GeneSetCollection"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "gbm_eset",
      "title": "Glioblastoma Multiforme (GBM) Data by Verhaak et al. (2010)",
      "object": "gbm_VerhaakEtAl",
      "file": "gbm_VerhaakEtAl.RData",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "geneExpCostaEtAl2021",
      "title": "RNA-seq Data by Costa et al. (2021)",
      "object": "geneprotExpCostaEtAl2021",
      "file": "geneprotExpCostaEtAl2021.RData",
      "class": [
        "SummarizedExperiment"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "huangArrayRMAnoBatchCommon_eset",
      "title": "Matching microarray and RNA-seq data from human lymphoblastoid cell lines",
      "object": "commonPickrellHuang",
      "file": "commonPickrellHuang.RData",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "msYgenesEntrez",
      "title": "Entrez genes with documented sex-specific expression",
      "object": "genderGenesEntrez",
      "file": "genderGenesEntrez.RData",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "pickrellCountsArgonneCQNcommon_eset",
      "title": "Matching microarray and RNA-seq data from human lymphoblastoid cell lines",
      "object": "commonPickrellHuang",
      "file": "commonPickrellHuang.RData",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "pickrellCountsYaleCQNcommon_eset",
      "title": "Matching microarray and RNA-seq data from human lymphoblastoid cell lines",
      "object": "commonPickrellHuang",
      "file": "commonPickrellHuang.RData",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "protExpCostaEtAl2021",
      "title": "RNA-seq Data by Costa et al. (2021)",
      "object": "geneprotExpCostaEtAl2021",
      "file": "geneprotExpCostaEtAl2021.RData",
      "class": [
        "RangedSummarizedExperiment"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "XiEgenesEntrez",
      "title": "Entrez genes with documented sex-specific expression",
      "object": "genderGenesEntrez",
      "file": "genderGenesEntrez.RData",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "GSVAdata-package",
      "title": "Data employed in the vignette of the GSVA package.",
      "topics": [
        "GSVAdata-package",
        "GSVAdata"
      ]
    },
    {
      "page": "annotEntrez220212",
      "title": "Annotation data on gene length and G+C content from NCBI",
      "topics": [
        "annotEntrez220212"
      ]
    },
    {
      "page": "brainTxDbSets",
      "title": "Gene sets signatures of brain cell types",
      "topics": [
        "brainTxDbSets"
      ]
    },
    {
      "page": "c2BroadSets",
      "title": "C2 collection of canonical pathways from MSigDB 3.0",
      "topics": [
        "c2BroadSets"
      ]
    },
    {
      "page": "commonPickrellHuang",
      "title": "Matching microarray and RNA-seq data from human lymphoblastoid cell lines",
      "topics": [
        "commonPickrellHuang",
        "huangArrayRMAnoBatchCommon_eset",
        "pickrellCountsArgonneCQNcommon_eset",
        "pickrellCountsYaleCQNcommon_eset"
      ]
    },
    {
      "page": "gbm_VerhaakEtAl",
      "title": "Glioblastoma Multiforme (GBM) Data by Verhaak et al. (2010)",
      "topics": [
        "gbm_eset",
        "gbm_VerhaakEtAl"
      ]
    },
    {
      "page": "genderGenesEntrez",
      "title": "Entrez genes with documented sex-specific expression",
      "topics": [
        "genderGenesEntrez",
        "msYgenesEntrez",
        "XiEgenesEntrez"
      ]
    },
    {
      "page": "geneprotExpCostaEtAl2021",
      "title": "RNA-seq Data by Costa et al. (2021)",
      "topics": [
        "geneExpCostaEtAl2021",
        "geneprotExpCostaEtAl2021",
        "protExpCostaEtAl2021"
      ]
    },
    {
      "page": "HumanCerebellumNormSubset",
      "title": "HumanCerebellumSubset",
      "topics": [
        "HumanCerebellumNormSubset"
      ]
    }
  ],
  "_rundeps": [
    "abind",
    "annotate",
    "AnnotationDbi",
    "askpass",
    "Biobase",
    "BiocBaseUtils",
    "BiocFileCache",
    "BiocGenerics",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crayon",
    "curl",
    "DBI",
    "dbplyr",
    "DelayedArray",
    "dplyr",
    "fastmap",
    "filelock",
    "generics",
    "GenomicRanges",
    "glue",
    "graph",
    "GSEABase",
    "httr",
    "httr2",
    "IRanges",
    "jsonlite",
    "KEGGREST",
    "lattice",
    "lifecycle",
    "magick",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "memoise",
    "mime",
    "openssl",
    "pillar",
    "pkgconfig",
    "png",
    "purrr",
    "R6",
    "Rcpp",
    "rjson",
    "rlang",
    "RSQLite",
    "S4Arrays",
    "S4Vectors",
    "Seqinfo",
    "SingleCellExperiment",
    "SparseArray",
    "SpatialExperiment",
    "stringi",
    "stringr",
    "SummarizedExperiment",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr",
    "XML",
    "xtable",
    "XVector"
  ],
  "_score": 4.650598898172657,
  "_indexed": true,
  "_nocasepkg": "gsvadata",
  "_universes": [
    "bioc",
    "rcastelo"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.49.2",
      "date": "2026-10-10T10:34:45.000Z",
      "distro": "resolute",
      "commit": "96cffff0143c1503f869c08f0a9ed65efcc39b95",
      "fileid": "https://r2.ropensci.org/ce0ffd201c18d79a02642d192f6e973b3d574698442127b537133e2360d13097",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38044938419"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.49.2",
      "date": "2026-10-10T10:34:00.000Z",
      "distro": "resolute",
      "commit": "96cffff0143c1503f869c08f0a9ed65efcc39b95",
      "fileid": "https://r2.ropensci.org/8ebc140c3da59c38f3095943d5fa73dcd995e2832d2962459f38a81b2652df8b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38044938419"
    }
  ]
}