{
  "_id": "6a589b15ff0138dec5d75aed",
  "Package": "mExplorer",
  "Version": "1.0.0",
  "License": "GPL (>= 2)",
  "Description": "The method 'm:Explorer' associates a given list of target\ngenes (e.g. those involved in a biological process) to gene\nregulators such as transcription factors. Transcription factors\nthat bind DNA near significantly many target genes or correlate\nwith target genes in transcriptional (microarray or RNAseq\ndata) are selected. Selection of candidate master regulators is\ncarried out using multinomial regression models, likelihood\nratio tests and multiple testing correction. Reference:\nm:Explorer: multinomial regression models reveal positive and\nnegative regulators of longevity in yeast quiescence. Juri\nReimand, Anu Aun, Jaak Vilo, Juan M Vaquerizas, Juhan Sedman\nand Nicholas M Luscombe. Genome Biology (2012) 13:R55\n<doi:10.1186/gb-2012-13-6-r55>.",
  "Title": "Identifying Master Gene Regulators from Gene Expression and\nDNA-Binding Data",
  "Authors@R": "person(\"Juri\", \"Reimand\", email = \"juri.reimand@utoronto.ca\", role = c(\"aut\", \"cre\"))",
  "Collate": "'mExplorer.R'",
  "NeedsCompilation": "no",
  "RoxygenNote": "6.0.1.9000",
  "Packaged": {
    "Date": "2026-07-16 08:46:34 UTC",
    "User": "root"
  },
  "Author": "Juri Reimand [aut, cre]",
  "Maintainer": "Juri Reimand <juri.reimand@utoronto.ca>",
  "Config/pak/sysreqs": "libfftw3-dev",
  "Repository": "https://reimand0.r-universe.dev",
  "Date/Publication": "2017-08-24 13:51:44 UTC",
  "RemoteUrl": "https://github.com/cran/mExplorer",
  "RemoteRef": "HEAD",
  "RemoteSha": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
  "_user": "reimand0",
  "_type": "src",
  "_file": "mExplorer_1.0.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/72b699bc4c213a3aa3c6ce4d0266640a83d6631ef14b71346ef3da3abccef126",
  "_filesize": 128527,
  "_sha256": "72b699bc4c213a3aa3c6ce4d0266640a83d6631ef14b71346ef3da3abccef126",
  "_expires": "2026-10-24T08:49:23.000Z",
  "_created": "2026-07-16T08:46:34.000Z",
  "_published": "2026-07-16T08:49:25.465Z",
  "_jobs": [
    {
      "job": 87576297242,
      "time": 119,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8369933353"
    },
    {
      "job": 87576297204,
      "time": 106,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8369928221"
    },
    {
      "job": 87576297212,
      "time": 75,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8369915887"
    },
    {
      "job": 87576297215,
      "time": 85,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8369920294"
    },
    {
      "job": 87575682490,
      "time": 182,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8369877815"
    },
    {
      "job": 87576297118,
      "time": 107,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8369928961"
    },
    {
      "job": 87576297231,
      "time": 73,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "8369915185"
    },
    {
      "job": 87576297154,
      "time": 66,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8369912367"
    },
    {
      "job": 87576297253,
      "time": 80,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8369918320"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978",
  "_status": "success",
  "_upstream": "https://github.com/cran/mExplorer",
  "_commit": {
    "id": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
    "author": "Juri Reimand <juri.reimand@utoronto.ca>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.0.0\n",
    "time": 1503582704
  },
  "_maintainer": {
    "name": "Juri Reimand",
    "email": "juri.reimand@utoronto.ca",
    "login": "reimand0",
    "description": "",
    "uuid": 19268349
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.0",
      "role": "Depends"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "nnet",
      "role": "Imports"
    },
    {
      "package": "parallel",
      "role": "Imports"
    },
    {
      "package": "qusage",
      "role": "Imports"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "reimand0",
      "count": 1,
      "uuid": 19268349
    }
  ],
  "_userbio": {
    "uuid": 19268349,
    "type": "user",
    "name": "reimand0",
    "followers": 0
  },
  "_downloads": {
    "count": 197,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/mExplorer"
  },
  "_searchresults": 0,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/mExplorer.html",
    "manual.pdf"
  ],
  "_realowner": "reimand0",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0.0",
      "date": "2017-08-24"
    }
  ],
  "_exports": [
    "mExplorer",
    "prepare_gmt_input"
  ],
  "_datasets": [
    {
      "name": "small_test_dframe",
      "title": "Small sample of predictor data for testing m:Explorer",
      "object": "mExplorer_small_test_data",
      "file": "mExplorer_small_test_data.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "mcm1",
        "mbp1",
        "ndd1",
        "swi4",
        "swi5",
        "swi6",
        "fkh1",
        "fkh2",
        "ace2",
        "rap1",
        "msn2",
        "hog1",
        "tup1",
        "ste12",
        "cup2",
        "ada2",
        "hsf1",
        "gal3"
      ],
      "rows": 10,
      "table": true,
      "tojson": true
    },
    {
      "name": "small_test_response_vec",
      "title": "Small vector of yeast transcription factors for testing m:Explorer",
      "object": "mExplorer_small_test_data",
      "file": "mExplorer_small_test_data.RData",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "yeastCCgenes",
      "title": "Example vector of yeast transcription factors for m:Explorer",
      "object": "yeastCCgenes",
      "file": "yeastCCgenes.RData",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "yeastTFdata",
      "title": "Example predictor data for m:Explorer",
      "object": "yeastTFdata",
      "file": "yeastTFdata.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "mcm1",
        "mbp1",
        "ndd1",
        "swi4",
        "swi5",
        "swi6",
        "fkh1",
        "fkh2",
        "ace2",
        "rap1",
        "msn2",
        "hog1",
        "tup1",
        "ste12",
        "cup2",
        "ada2",
        "hsf1",
        "gal3"
      ],
      "rows": 6253,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "mExplorer",
      "title": "Selection of process-specific regulators from high-throughput data using multinomial regression models.",
      "topics": [
        "mExplorer"
      ]
    },
    {
      "page": "prepare_gmt_input",
      "title": "Creation of m:Explorer input data frame from GMT files",
      "topics": [
        "prepare_gmt_input"
      ]
    },
    {
      "page": "small_test_dframe",
      "title": "Small sample of predictor data for testing m:Explorer",
      "topics": [
        "small_test_dframe"
      ]
    },
    {
      "page": "small_test_response_vec",
      "title": "Small vector of yeast transcription factors for testing m:Explorer",
      "topics": [
        "small_test_response_vec"
      ]
    },
    {
      "page": "yeastCCgenes",
      "title": "Example vector of yeast transcription factors for m:Explorer",
      "topics": [
        "yeastCCgenes"
      ]
    },
    {
      "page": "yeastTFdata",
      "title": "Example predictor data for m:Explorer",
      "topics": [
        "yeastTFdata"
      ]
    }
  ],
  "_rundeps": [
    "Biobase",
    "BiocGenerics",
    "emmeans",
    "estimability",
    "fftw",
    "generics",
    "lattice",
    "limma",
    "mvtnorm",
    "nlme",
    "nnet",
    "numDeriv",
    "qusage",
    "rlang",
    "statmod"
  ],
  "_score": 1,
  "_indexed": true,
  "_nocasepkg": "mexplorer",
  "_universes": [
    "reimand0"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:52.000Z",
      "distro": "resolute",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/47c7e7ddebe79af44bfa2b99d3c041c67dd3e452e1b28ca002a75b8554b8adc1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:43.000Z",
      "distro": "resolute",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/6b319cae2f3067e5de67d7ea3dd14476dcc09edd11ca8d420a1e376823972be1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:15.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/20596430cac987e035e772abd0f2d8ef55d6dfe16c28b56b5a96cc8b5dc3c628",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:22.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/a05e4bc9a4d69389cc7b1a5c79b030ded2b97a5385a42c64d4792d71e12163c0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:52.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/dfbc9978aee5b7b5afb1892d9556479128275cc1b87e7116a0feb87ff321d3e1",
      "status": "success",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:05.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/dbb4a9e189119004296d039398e26ac92d3fc5fe75892d21a08e6d01cfa70a80",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-07-16T08:47:54.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/d5641692742345817b7b557278f0ae89c46eafa0a90d6da5c2e00a74d2a0869f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-07-16T08:48:11.000Z",
      "commit": "c9c122bd2f0bbdf5dc589c7b77a7b514dbf785b1",
      "fileid": "https://r2.ropensci.org/27a3764e2ea8245c27f9ff3d4d84e13a6371da03e86f04544e0f2be56fa51a47",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/reimand0/actions/runs/29484480978"
    }
  ]
}