{
  "_id": "6a2009d4b401979e73447178",
  "Package": "KOGMWU",
  "Type": "Package",
  "Title": "Functional Summary and Meta-Analysis of Gene Expression Data",
  "Version": "1.2",
  "Date": "2019-02-19",
  "Author": "Mikhail V. Matz",
  "Maintainer": "Mikhail V. Matz <matz@utexas.edu>",
  "Description": "Rank-based tests for enrichment of KOG (euKaryotic\nOrthologous Groups) classes with up- or down-regulated genes\nbased on a continuous measure. The meta-analysis is based on\ncorrelation of KOG delta-ranks across datasets (delta-rank is\nthe difference between mean rank of genes belonging to a KOG\nclass and mean rank of all other genes). With binary measure (1\nor 0 to indicate significant and non-significant genes),\none-tailed Fisher's exact test for over-representation of each\nKOG class among significant genes will be performed.",
  "License": "GPL-3",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-03 10:59:13 UTC",
    "User": "root"
  },
  "Repository": "https://z0on.r-universe.dev",
  "Date/Publication": "2019-02-19 18:00:03 UTC",
  "RemoteUrl": "https://github.com/cran/KOGMWU",
  "RemoteRef": "HEAD",
  "RemoteSha": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
  "MD5sum": "b1eb21adc1c0c039c877855704b0ab99",
  "_user": "z0on",
  "_type": "src",
  "_file": "KOGMWU_1.2.tar.gz",
  "_fileid": "55ec37ea7781624c4b3703d0df1183492d58c06a323fbdaf1b3bff7b02661757",
  "_filesize": 935432,
  "_sha256": "55ec37ea7781624c4b3703d0df1183492d58c06a323fbdaf1b3bff7b02661757",
  "_created": "2026-06-03T10:59:13.000Z",
  "_published": "2026-06-03T11:02:44.047Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79278657908,
      "time": 109,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7382731691"
    },
    {
      "job": 79278658023,
      "time": 108,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7382731040"
    },
    {
      "job": 79278658031,
      "time": 141,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7382734994"
    },
    {
      "job": 79278657948,
      "time": 181,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7382742847"
    },
    {
      "job": 79278311376,
      "time": 127,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7382693661"
    },
    {
      "job": 79278658018,
      "time": 89,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7382724669"
    },
    {
      "job": 79278657921,
      "time": 71,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7382717942"
    },
    {
      "job": 79278657975,
      "time": 67,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7382716429"
    },
    {
      "job": 79278658116,
      "time": 77,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7382720898"
    }
  ],
  "_buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/KOGMWU",
  "_commit": {
    "id": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
    "author": "Mikhail V. Matz <matz@utexas.edu>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.2\n",
    "time": 1550599203
  },
  "_maintainer": {
    "name": "Mikhail V. Matz",
    "email": "matz@utexas.edu",
    "login": "z0on",
    "twitter": "@heatshok",
    "description": "https://scholar.google.com/citations?user=VB83XasAAAAJ&hl=en ",
    "uuid": 7553944
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "pheatmap",
      "role": "Depends"
    }
  ],
  "_owner": "cran",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "z0on",
      "count": 3,
      "uuid": 7553944
    }
  ],
  "_userbio": {
    "uuid": 7553944,
    "type": "user",
    "name": "Mikhail V Matz",
    "description": "https://scholar.google.com/citations?user=VB83XasAAAAJ&hl=en "
  },
  "_downloads": {
    "count": 128,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/KOGMWU"
  },
  "_mentions": 1,
  "_searchresults": 16,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/KOGMWU.html",
    "manual.pdf"
  ],
  "_realowner": "z0on",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.0",
      "date": "2015-03-05"
    },
    {
      "version": "1.1",
      "date": "2016-11-17"
    },
    {
      "version": "1.2",
      "date": "2019-02-19"
    }
  ],
  "_exports": [
    "corrPlot",
    "kog.ft",
    "kog.mwu",
    "kog.mwut",
    "makeDeltaRanksTable",
    "panel.cor",
    "panel.cor.pval"
  ],
  "_datasets": [
    {
      "name": "adults.3dHeat.logFoldChange",
      "title": "Heat stress response of adult coral",
      "object": "adults.3dHeat.logFoldChange",
      "file": "adults.3dHeat.logFoldChange.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "gene",
        "lfc"
      ],
      "rows": 44363,
      "table": true,
      "tojson": true
    },
    {
      "name": "gene2kog",
      "title": "KOG class annotations",
      "object": "gene2kog",
      "file": "gene2kog.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2"
      ],
      "rows": 16175,
      "table": true,
      "tojson": true
    },
    {
      "name": "larvae.longTerm",
      "title": "Long-term heat stress response of coral larvae",
      "object": "larvae.longTerm",
      "file": "larvae.longTerm.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "gene",
        "lfc"
      ],
      "rows": 31844,
      "table": true,
      "tojson": true
    },
    {
      "name": "larvae.shortTerm",
      "title": "Short-term heat stress response of coral larvae",
      "object": "larvae.shortTerm",
      "file": "larvae.shortTerm.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "gene",
        "lfc"
      ],
      "rows": 32307,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "KOGMWU-package",
      "title": "Functional summary and meta-analysis of gene expression data",
      "topics": [
        "KOGMWU-package",
        "KOGMWU"
      ]
    },
    {
      "page": "adults.3dHeat.logFoldChange",
      "title": "Heat stress response of adult coral",
      "topics": [
        "adults.3dHeat.logFoldChange"
      ]
    },
    {
      "page": "corrPlot",
      "title": "Plots a pairwise correlation with linear regression line",
      "topics": [
        "corrPlot"
      ]
    },
    {
      "page": "gene2kog",
      "title": "KOG class annotations",
      "topics": [
        "gene2kog"
      ]
    },
    {
      "page": "kog.ft",
      "title": "One-tailed Fisher's exact test for KOG enrichment.",
      "topics": [
        "kog.ft"
      ]
    },
    {
      "page": "kog.mwu",
      "title": "Tests for KOG class enrichment.",
      "topics": [
        "kog.mwu"
      ]
    },
    {
      "page": "kog.mwut",
      "title": "Mann-Whitney U test for KOG enrichment.",
      "topics": [
        "kog.mwut"
      ]
    },
    {
      "page": "larvae.longTerm",
      "title": "Long-term heat stress response of coral larvae",
      "topics": [
        "larvae.longTerm"
      ]
    },
    {
      "page": "larvae.shortTerm",
      "title": "Short-term heat stress response of coral larvae",
      "topics": [
        "larvae.shortTerm"
      ]
    },
    {
      "page": "makeDeltaRanksTable",
      "title": "Make a combined delta-ranks table from several kog.mwu() results.",
      "topics": [
        "makeDeltaRanksTable"
      ]
    },
    {
      "page": "panel.cor",
      "title": "accessory function for pairs() to display Pearson correlations",
      "topics": [
        "panel.cor"
      ]
    },
    {
      "page": "panel.cor.pval",
      "title": "accessory function for pairs() to display pvalue of the Pearson correlation",
      "topics": [
        "panel.cor.pval"
      ]
    }
  ],
  "_rundeps": [
    "cli",
    "farver",
    "glue",
    "gtable",
    "labeling",
    "lifecycle",
    "pheatmap",
    "R6",
    "RColorBrewer",
    "rlang",
    "scales",
    "viridisLite"
  ],
  "_score": 1.2041199826559248,
  "_indexed": true,
  "_nocasepkg": "kogmwu",
  "_universes": [
    "z0on"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.2",
      "date": "2026-06-03T11:01:02.000Z",
      "distro": "noble",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "4d66eed35615096b5c2b0475862c267bd93264abf750684c9d24c32ac15152d8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.2",
      "date": "2026-06-03T11:01:00.000Z",
      "distro": "noble",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "16c154c0b5817048166bb648336130bcc5b20edbeb1a2840048dcaf2da59156d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.2",
      "date": "2026-06-03T11:01:17.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "3a0bd637d810c7640e9dc79edd75268c243eced51478b8e19d0015376f505cb4",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.2",
      "date": "2026-06-03T11:01:35.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "0d1d49119f0a8c2d2c28f2d4e41f7c32624bd388c3af2d52c6cdab6c05fea28e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.2",
      "date": "2026-06-03T11:00:57.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "da52aae463f046b28cf5804ee1d8b15760b7619e088359be94a0e465ba5b0fac",
      "status": "success",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.2",
      "date": "2026-06-03T11:00:19.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "c9b86fcb3a5f8776abf2ba09c689eefdb0f8d50f60b3c56039ff6b14c4b5087b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.2",
      "date": "2026-06-03T11:00:14.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "a8f2184146a08f46eee67059fc27408ce523d73093136bed81ef68d8fe676812",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.2",
      "date": "2026-06-03T11:00:31.000Z",
      "commit": "6ac264c08e17ac8736f70e58da62f9fa91af032c",
      "fileid": "00379f82a82e2436edc4fbbd143d9f583cf2386b2b64bd138aa74b762ebf2ebc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/z0on/actions/runs/26880288615"
    }
  ]
}