{
  "_id": "6a1ac15f1d7bb097a09d8400",
  "Package": "Mulcom",
  "Type": "Package",
  "Title": "Calculates Mulcom test",
  "Version": "1.63.0",
  "Date": "2011-10-08",
  "Author": "Claudio Isella",
  "Maintainer": "Claudio Isella <claudio.isella@ircc.it>",
  "Description": "Identification of differentially expressed genes and false\ndiscovery rate (FDR) calculation by Multiple Comparison test.",
  "License": "GPL-2",
  "LazyLoad": "yes",
  "Packaged": {
    "Date": "2026-05-30 07:27:38 UTC",
    "User": "root"
  },
  "biocViews": "StatisticalMethod, MultipleComparison, Microarray,\nDifferentialExpression, GeneExpression",
  "git_url": "https://git.bioconductor.org/packages/Mulcom",
  "git_branch": "RELEASE_3_8",
  "git_last_commit": "4f49fd6",
  "git_last_commit_date": "2018-10-30",
  "NeedsCompilation": "yes",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:34:49 UTC",
  "RemoteUrl": "https://github.com/bioc/Mulcom",
  "RemoteRef": "HEAD",
  "RemoteSha": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
  "MD5sum": "f4dd1d577e2078e064ba164c11723870",
  "_user": "bioc",
  "_type": "src",
  "_file": "Mulcom_1.63.0.tar.gz",
  "_fileid": "f8496d11f831c0122faf42f62cecb80f4fb900f3f95951f35baae055dd6c1bb7",
  "_filesize": 1271664,
  "_sha256": "f8496d11f831c0122faf42f62cecb80f4fb900f3f95951f35baae055dd6c1bb7",
  "_created": "2026-05-30T07:27:38.000Z",
  "_published": "2026-05-30T10:52:15.665Z",
  "_jobs": [
    {
      "job": 78633490689,
      "time": 147,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7306482308"
    },
    {
      "job": 78633490694,
      "time": 126,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7306480192"
    },
    {
      "job": 78633490701,
      "time": 178,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7306485877"
    },
    {
      "job": 78633490711,
      "time": 130,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7306480515"
    },
    {
      "job": 78633490719,
      "time": 189,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7306487030"
    },
    {
      "job": 78633490707,
      "time": 136,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7307599807"
    },
    {
      "job": 78633490714,
      "time": 218,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7306563626"
    },
    {
      "job": 78633490709,
      "time": 103,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7307595891"
    },
    {
      "job": 78633490708,
      "time": 221,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7306565017"
    },
    {
      "job": 78633325616,
      "time": 174,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306464995"
    },
    {
      "job": 78633490680,
      "time": 103,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306477593"
    },
    {
      "job": 78633490693,
      "time": 121,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7306479667"
    },
    {
      "job": 78633490698,
      "time": 104,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7306477923"
    },
    {
      "job": 78633490696,
      "time": 117,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7306479248"
    }
  ],
  "_bioccheck": {
    "error": 2,
    "warning": 6,
    "note": 10
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/Mulcom",
  "_commit": {
    "id": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
    "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": 1777379689
  },
  "_maintainer": {
    "name": "Claudio Isella",
    "email": "claudio.isella@ircc.it"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "Biobase",
      "role": "Depends"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "fields",
      "role": "Imports"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.63.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.62.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "statisticalmethod",
    "multiplecomparison",
    "microarray",
    "differentialexpression",
    "geneexpression",
    "cpp"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 460,
    "source": "https://www.bioconductor.org/packages/stats/bioc/Mulcom"
  },
  "_mentions": 1,
  "_searchresults": 4,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/Mulcom.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "mulCalc",
    "mulCAND",
    "mulDELTA",
    "mulDiff",
    "mulFSG",
    "mulIndex",
    "mulInt",
    "mulOpt",
    "mulOptPars",
    "mulOptPlot",
    "mulParOpt",
    "mulPerm",
    "mulScores"
  ],
  "_datasets": [
    {
      "name": "Affy",
      "title": "Affy Dataset",
      "object": "benchVign",
      "file": "benchVign.rda",
      "class": [
        "ExpressionSet"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "AffyIlmn",
      "title": "cross mapping table",
      "object": "benchVign",
      "file": "benchVign.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Symbol",
        "Probe.x",
        "Description.x",
        "Gene.x",
        "Probe.y",
        "Description.y",
        "Gene.y"
      ],
      "rows": 11298,
      "table": true,
      "tojson": true
    },
    {
      "name": "limmaAffySymbols",
      "title": "significant gene list with limma in Affymetrix",
      "object": "others",
      "file": "others.rda",
      "class": [
        "factor"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "limmaIlmnSymbols",
      "title": "significant gene list with limma in Illumina",
      "object": "others",
      "file": "others.rda",
      "class": [
        "factor"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "mulcomGeneListIlmn",
      "title": "significant gene list with limma in Illumina",
      "object": "others",
      "file": "others.rda",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "samAffySymbols",
      "title": "significant gene list with SAM in Affymetrix",
      "object": "others",
      "file": "others.rda",
      "class": [
        "factor"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "samIlmnSymbols",
      "title": "significant gene list with SAM in Illumina",
      "object": "others",
      "file": "others.rda",
      "class": [
        "factor"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "Affy",
      "title": "Affy Dataset",
      "topics": [
        "Affy"
      ]
    },
    {
      "page": "AffyIlmn",
      "title": "cross mapping table",
      "topics": [
        "AffyIlmn"
      ]
    },
    {
      "page": "harmonicMean",
      "title": "MulCom Harmonic Mean",
      "topics": [
        "harmonicMean"
      ]
    },
    {
      "page": "Illumina",
      "title": "Illumina Dataset",
      "topics": [
        "Illumina"
      ]
    },
    {
      "page": "Ilmn",
      "title": "Ilmn Dataset",
      "topics": [
        "Ilmn"
      ]
    },
    {
      "page": "limmaAffySymbols",
      "title": "significant gene list with limma in Affymetrix",
      "topics": [
        "limmaAffySymbols"
      ]
    },
    {
      "page": "limmaIlmnSymbols",
      "title": "significant gene list with limma in Illumina",
      "topics": [
        "limmaIlmnSymbols"
      ]
    },
    {
      "page": "mulCalc",
      "title": "MulCom Calculation",
      "topics": [
        "mulCalc"
      ]
    },
    {
      "page": "mulCAND",
      "title": "Identify the Mulcom candidate feature selection",
      "topics": [
        "mulCAND"
      ]
    },
    {
      "page": "MULCOM_P",
      "title": "Class MulCom Permutation",
      "topics": [
        "class:MULCOM_P",
        "MULCOM_P",
        "MULCOM_P-class"
      ]
    },
    {
      "page": "MULCOM-class",
      "title": "Class MulCom",
      "topics": [
        "class:MULCOM",
        "MULCOM",
        "MULCOM-class"
      ]
    },
    {
      "page": "mulcomGeneListIlmn",
      "title": "significant gene list with limma in Illumina",
      "topics": [
        "mulcomGeneListIlmn"
      ]
    },
    {
      "page": "mulDELTA",
      "title": "MulCom Delta",
      "topics": [
        "mulDELTA"
      ]
    },
    {
      "page": "mulDiff",
      "title": "MulCom Test Differential analysis",
      "topics": [
        "mulDiff"
      ]
    },
    {
      "page": "mulFSG",
      "title": "MulCom False Significant Genes",
      "topics": [
        "mulFSG"
      ]
    },
    {
      "page": "mulIndex",
      "title": "Mulcom Index for Monte Carlo Simlation",
      "topics": [
        "mulIndex"
      ]
    },
    {
      "page": "mulInt",
      "title": "generates a consensus matrix from list of genes",
      "topics": [
        "mulInt"
      ]
    },
    {
      "page": "mulMSE",
      "title": "MulCom Mean Square Error",
      "topics": [
        "mulMSE"
      ]
    },
    {
      "page": "mulOpt",
      "title": "MulCom optimization",
      "topics": [
        "mulOpt"
      ]
    },
    {
      "page": "mulOptPars",
      "title": "MulCom Parameter Optimization",
      "topics": [
        "mulOptPars"
      ]
    },
    {
      "page": "mulOptPlot",
      "title": "MulCom optimization Plot",
      "topics": [
        "mulOptPlot"
      ]
    },
    {
      "page": "mulParOpt",
      "title": "MulCom Parameters Optimization",
      "topics": [
        "mulParOpt"
      ]
    },
    {
      "page": "mulPerm",
      "title": "MulCom Permutation",
      "topics": [
        "mulPerm"
      ]
    },
    {
      "page": "mulPermC",
      "title": "MulCom Permutation",
      "topics": [
        "mulPermC"
      ]
    },
    {
      "page": "mulScores",
      "title": "MulCom Score Calculation",
      "topics": [
        "mulScores"
      ]
    },
    {
      "page": "mulSSE",
      "title": "MulCom Sum of Square Error",
      "topics": [
        "mulSSE"
      ]
    },
    {
      "page": "samAffySymbols",
      "title": "significant gene list with SAM in Affymetrix",
      "topics": [
        "samAffySymbols"
      ]
    },
    {
      "page": "samIlmnSymbols",
      "title": "significant gene list with SAM in Illumina",
      "topics": [
        "samIlmnSymbols"
      ]
    },
    {
      "page": "samOptPars",
      "title": "sam Parameter Optimization",
      "topics": [
        "samOptPars"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/Mulcom/raw/HEAD/README.md",
  "_rundeps": [
    "Biobase",
    "BiocGenerics",
    "dotCall64",
    "fields",
    "generics",
    "maps",
    "RColorBrewer",
    "Rcpp",
    "spam",
    "viridisLite"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_score": 3,
  "_indexed": true,
  "_nocasepkg": "mulcom",
  "_universes": [
    "bioc"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.63.0",
      "date": "2026-05-30T07:29:36.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "e63f6f796fe1aa4295669ea5c26debf3f9f3ec6811f9de0a4726b35f41d966b6",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.63.0",
      "date": "2026-05-30T07:30:22.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "5822069ee8c2a1587cff2e848a0fcc335d9f2cb3640d25d43b43a8a9dae4165d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.63.0",
      "date": "2026-05-30T07:29:38.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "ebf23f112cac67aff8d31bbfabac619b84342c3338e71566e0acd2770d23e093",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.63.0",
      "date": "2026-05-30T07:30:34.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "531840030f8c6cdabad8f0e251022f5ccf74a6bfff35d29cf4d70ec4172f3996",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.63.0",
      "date": "2026-05-30T10:42:44.000Z",
      "arch": "aarch64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "b8a7d41be6689782f69211ea8251e29f72bf2c52d25e896a9f3c4455e71788c9",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.63.0",
      "date": "2026-05-30T07:42:23.000Z",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "865b633990a5ed1ed898c1314ccbaa9e4b6251e985e77f13d0cdc5b3d4cb93d9",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.63.0",
      "date": "2026-05-30T10:42:14.000Z",
      "arch": "aarch64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "837ffacd78c2da87f22e15587bbcbb83c80f99208665d3edb1aea9d2d1aca71d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.63.0",
      "date": "2026-05-30T07:42:36.000Z",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "787f405b772b36b188cd66c04fd16d72ce0c0cb6a9d47bd1beedd1c46c5e22fb",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.63.0",
      "date": "2026-05-30T07:29:42.000Z",
      "arch": "emscripten",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "e2e4c510c090dd3729cfc3cc7e894bdeafc2c2dbe23a7ea1f33a35b9dc67ff86",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.63.0",
      "date": "2026-05-30T07:29:02.000Z",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "b71ea52e8fd163ae82c41939db3a57cb9f422fbf11ed63e483dd54df7c5dd58f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.63.0",
      "date": "2026-05-30T07:28:46.000Z",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "dc610b367f207f2d3333dcbf2abf89b72a3ca48359ccdf50df9612b2088d2c39",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.63.0",
      "date": "2026-05-30T07:28:53.000Z",
      "arch": "x86_64",
      "commit": "6a8ecd2126bb4f412eccd7e7249f24d4c1a5dd02",
      "fileid": "3765a53e3fd0b5b0e1b03df1392bcb3813d635cadedb75374a3cf5a9770b75a3",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678004732"
    }
  ]
}