{
  "_id": "6a4997cc74ff1be5edd7955a",
  "Package": "GSAR",
  "Type": "Package",
  "Title": "Gene Set Analysis in R",
  "Version": "1.47.0",
  "Date": "2025-5-12",
  "Author": "Yasir Rahmatallah <yrahmatallah@uams.edu>, Galina Glazko\n<gvglazko@uams.edu>",
  "Maintainer": "Yasir Rahmatallah <yrahmatallah@uams.edu>, Galina Glazko\n<gvglazko@uams.edu>",
  "LazyData": "yes",
  "biocViews": "Software, StatisticalMethod, DifferentialExpression",
  "Description": "Gene set analysis using specific alternative hypotheses.\nTests for differential expression, scale and net correlation\nstructure.",
  "License": "GPL (>=2)",
  "Config/pak/sysreqs": "libglpk-dev libxml2-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:39:15 UTC",
  "RemoteUrl": "https://github.com/bioc/GSAR",
  "RemoteRef": "HEAD",
  "RemoteSha": "cfe0abe6a24fac963166d0aea457144312476c48",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-04 23:14:41 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "GSAR_1.47.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/453638558b1793d8bbedb66917811bfeefe966bfae8fc34d42f33cdef6f05e01",
  "_filesize": 2039678,
  "_sha256": "453638558b1793d8bbedb66917811bfeefe966bfae8fc34d42f33cdef6f05e01",
  "_expires": "2026-10-12T23:31:22.000Z",
  "_created": "2026-07-04T23:14:41.000Z",
  "_published": "2026-07-04T23:31:24.517Z",
  "_bioccheck": {
    "error": 1,
    "warning": 3,
    "note": 13
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500",
  "_status": "success",
  "_upstream": "https://github.com/bioc/GSAR",
  "_commit": {
    "id": "cfe0abe6a24fac963166d0aea457144312476c48",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777379955
  },
  "_maintainer": {
    "name": "Yasir Rahmatallah",
    "email": "gvglazko@uams.edu",
    "login": "yrahmatallah",
    "orcid": "0000-0002-8176-6328",
    "description": "",
    "uuid": 12848487
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 85174894601,
      "time": 258,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "8086316951"
    },
    {
      "job": 85174894628,
      "time": 280,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8086319383"
    },
    {
      "job": 85174894610,
      "time": 284,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8086319619"
    },
    {
      "job": 85174894609,
      "time": 114,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "8086334601"
    },
    {
      "job": 85174894608,
      "time": 101,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8086332096"
    },
    {
      "job": 85174492552,
      "time": 432,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8086290574"
    },
    {
      "job": 85174894596,
      "time": 221,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8086313348"
    },
    {
      "job": 85174894612,
      "time": 964,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8086392902"
    },
    {
      "job": 85174894633,
      "time": 807,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "8086376560"
    },
    {
      "job": 85174894629,
      "time": 910,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8086386873"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.0.1",
      "role": "Depends"
    },
    {
      "package": "igraph",
      "version": ">= 0.7.1",
      "role": "Depends"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "MASS",
      "role": "Suggests"
    },
    {
      "package": "GSVAdata",
      "role": "Suggests"
    },
    {
      "package": "ALL",
      "role": "Suggests"
    },
    {
      "package": "tweeDEseqCountData",
      "role": "Suggests"
    },
    {
      "package": "GSEABase",
      "role": "Suggests"
    },
    {
      "package": "annotate",
      "role": "Suggests"
    },
    {
      "package": "org.Hs.eg.db",
      "role": "Suggests"
    },
    {
      "package": "Biobase",
      "role": "Suggests"
    },
    {
      "package": "genefilter",
      "role": "Suggests"
    },
    {
      "package": "hgu95av2.db",
      "role": "Suggests"
    },
    {
      "package": "edgeR",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.47.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.46.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "software",
    "statisticalmethod",
    "differentialexpression"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 445,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_mentions": 6,
  "_searchresults": 10,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/GSAR.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "ADtest",
    "AggrFtest",
    "CVMtest",
    "findMST2",
    "findMST2.PPI",
    "GSNCAtest",
    "HDP.ranking",
    "KStest",
    "MDtest",
    "plotMST2.pathway",
    "radial.ranking",
    "RADtest",
    "RCVMtest",
    "RKStest",
    "RMDtest",
    "TestGeneSets",
    "WWtest"
  ],
  "_datasets": [
    {
      "name": "p53DataSet",
      "title": "p53 Dataset of the NCI-60 Cell Lines",
      "object": "p53DataSet",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "WT1",
        "WT2",
        "WT3",
        "WT4",
        "WT5",
        "WT6",
        "WT7",
        "WT8",
        "WT9",
        "WT10",
        "WT11",
        "WT12",
        "WT13",
        "WT14",
        "WT15",
        "WT16",
        "WT17",
        "MUT1",
        "MUT2",
        "MUT3",
        "MUT4",
        "MUT5",
        "MUT6",
        "MUT7",
        "MUT8",
        "MUT9",
        "MUT10",
        "MUT11",
        "MUT12",
        "MUT13",
        "MUT14",
        "MUT15",
        "MUT16",
        "MUT17",
        "MUT18",
        "MUT19",
        "MUT20",
        "MUT21",
        "MUT22",
        "MUT23",
        "MUT24",
        "MUT25",
        "MUT26",
        "MUT27",
        "MUT28",
        "MUT29",
        "MUT30",
        "MUT31",
        "MUT32",
        "MUT33"
      ],
      "rows": 8655,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "GSAR-package",
      "title": "Gene Set Analysis in R",
      "topics": [
        "GSAR-package",
        "GSAR"
      ]
    },
    {
      "page": "ADtest",
      "title": "Multivariate Anderson-Darling Test of Means",
      "topics": [
        "ADtest"
      ]
    },
    {
      "page": "AggrFtest",
      "title": "Aggregated F-Test of Variance Using Fisher's Probability Combining Method",
      "topics": [
        "AggrFtest"
      ]
    },
    {
      "page": "CVMtest",
      "title": "Multivariate Cramer-Von Mises of Means",
      "topics": [
        "CVMtest"
      ]
    },
    {
      "page": "findMST2",
      "title": "Union of the First and Second Minimum Spanning Trees",
      "topics": [
        "findMST2"
      ]
    },
    {
      "page": "findMST2.PPI",
      "title": "Union of the First and Second Minimum Spanning Trees for PPI Networks",
      "topics": [
        "findMST2.PPI"
      ]
    },
    {
      "page": "GSNCAtest",
      "title": "Gene Sets Net Correlations Analysis",
      "topics": [
        "GSNCAtest"
      ]
    },
    {
      "page": "HDP.ranking",
      "title": "High Directed Preorder Ranking of MST",
      "topics": [
        "HDP.ranking"
      ]
    },
    {
      "page": "KStest",
      "title": "Multivariate Kolmogorov-Smirnov Test of Means",
      "topics": [
        "KStest"
      ]
    },
    {
      "page": "MDtest",
      "title": "Multivariate Mean Deviation Test of Means",
      "topics": [
        "MDtest"
      ]
    },
    {
      "page": "p53DataSet",
      "title": "p53 Dataset of the NCI-60 Cell Lines",
      "topics": [
        "p53DataSet"
      ]
    },
    {
      "page": "plotMST2.pathway",
      "title": "Plot MST2 for a pathway in two conditions",
      "topics": [
        "plotMST2.pathway"
      ]
    },
    {
      "page": "radial.ranking",
      "title": "Radial Ranking of MST",
      "topics": [
        "radial.ranking"
      ]
    },
    {
      "page": "RADtest",
      "title": "Multivariate Radial Anderson-Darling Test of Variance",
      "topics": [
        "RADtest"
      ]
    },
    {
      "page": "RCVMtest",
      "title": "Multivariate Radial Cramer-Von Mises Test of Variance",
      "topics": [
        "RCVMtest"
      ]
    },
    {
      "page": "RKStest",
      "title": "Multivariate Radial Kolmogorov-Smirnov Test of Variance",
      "topics": [
        "RKStest"
      ]
    },
    {
      "page": "RMDtest",
      "title": "Multivariate Radial Mean Deviation Test of Variance",
      "topics": [
        "RMDtest"
      ]
    },
    {
      "page": "TestGeneSets",
      "title": "Test a List of Gene Sets Using a Specific Statistical Method",
      "topics": [
        "TestGeneSets"
      ]
    },
    {
      "page": "WWtest",
      "title": "Multivariate Generalization of the Wald-Wolfowitz Runs Test",
      "topics": [
        "WWtest"
      ]
    }
  ],
  "_rundeps": [
    "cli",
    "cpp11",
    "glue",
    "igraph",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "pkgconfig",
    "rlang",
    "vctrs"
  ],
  "_vignettes": [
    {
      "source": "GSAR.Rnw",
      "filename": "GSAR.pdf",
      "title": "Gene Set Analysis in R -- the GSAR Package",
      "engine": "utils::Sweave",
      "headings": [
        "1 Introduction",
        "2 Minimum spanning trees",
        "3 Statistical methods",
        "4 Notes on handling RNA-seq count data",
        "5 Case studies",
        "6 Session info"
      ],
      "created": "2014-05-27 23:34:58",
      "modified": "2024-06-14 16:37:31",
      "commits": 9
    }
  ],
  "_score": 4.079181246047625,
  "_indexed": true,
  "_nocasepkg": "gsar",
  "_universes": [
    "bioc",
    "yrahmatallah"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.47.0",
      "date": "2026-07-04T23:19:17.000Z",
      "distro": "resolute",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/8a090fb7201f1a083b3e1f684781cea5aa3ace777f4f9da37585c55c983de355",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.47.0",
      "date": "2026-07-04T23:19:18.000Z",
      "distro": "resolute",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/3f5c0fb98553d96e56371a3591c3f41fc3e58f75711698bc100fc9828c04cb4b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.47.0",
      "date": "2026-07-04T23:21:46.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/a39e2365375ced66a1165d6ea02952766f2edcefabcb6255a7a3a7c1c3eefada",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.47.0",
      "date": "2026-07-04T23:21:23.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/f801cb7e5d0d4a95156fd8eac6d3c67c7b161f716cbd5c5c24b12d3831ce3b56",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.47.0",
      "date": "2026-07-04T23:18:40.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/af8563b251204649a746a79b171d98c0244bfc2dd1721a0705571f1b62869c97",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-07-04T23:30:31.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/49f9e7c45eabd7f2050634183dec157304471845ecc178b67b3c544973ca4189",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-07-04T23:27:58.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/35beb8dcf38e6cb380254bd629649c469c8cdc9eed83572cb64ae8d490588479",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.47.0",
      "date": "2026-07-04T23:29:39.000Z",
      "commit": "cfe0abe6a24fac963166d0aea457144312476c48",
      "fileid": "https://r2.ropensci.org/8b7d302f1a0092a01991fa90dd765d1e34ae4c92f25353d01214518875324c35",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/28722591500"
    }
  ]
}