{
  "_id": "6a5b39e29baadeef8ab4ccb7",
  "Package": "pmm",
  "Type": "Package",
  "Title": "Parallel Mixed Model",
  "Version": "1.45.0",
  "Date": "2015-02-24",
  "Author": "Anna Drewek",
  "Maintainer": "Anna Drewek <adrewek@stat.math.ethz.ch>",
  "Description": "The Parallel Mixed Model (PMM) approach is suitable for\nhit selection and cross-comparison of RNAi screens generated in\nexperiments that are performed in parallel under several\nconditions. For example, we could think of the measurements or\nreadouts from cells under RNAi knock-down, which are infected\nwith several pathogens or which are grown from different cell\nlines.",
  "License": "GPL-3",
  "biocViews": "SystemsBiology, Regression",
  "Config/pak/sysreqs": "cmake make",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:40:59 UTC",
  "RemoteUrl": "https://github.com/bioc/pmm",
  "RemoteRef": "HEAD",
  "RemoteSha": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-18 08:26:55 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "pmm_1.45.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/0e72795a72c23622886968d61a1af191bf9657640ae440a603c053e98d0d0e72",
  "_filesize": 800056,
  "_sha256": "0e72795a72c23622886968d61a1af191bf9657640ae440a603c053e98d0d0e72",
  "_expires": "2026-10-26T08:31:29.000Z",
  "_created": "2026-07-18T08:26:55.000Z",
  "_published": "2026-07-18T08:31:30.896Z",
  "_bioccheck": {
    "error": 1,
    "warning": 3,
    "note": 11
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738",
  "_status": "success",
  "_upstream": "https://github.com/bioc/pmm",
  "_commit": {
    "id": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
    "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": 1777380059
  },
  "_maintainer": {
    "name": "Anna Drewek",
    "email": "adrewek@stat.math.ethz.ch"
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 88062225082,
      "time": 151,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "8427567676"
    },
    {
      "job": 88062225090,
      "time": 215,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8427575860"
    },
    {
      "job": 88062225083,
      "time": 227,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8427577757"
    },
    {
      "job": 88062225140,
      "time": 99,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "8427560930"
    },
    {
      "job": 88062225081,
      "time": 113,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8427562603"
    },
    {
      "job": 88061976152,
      "time": 203,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8427547115"
    },
    {
      "job": 88062225086,
      "time": 113,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8427562572"
    },
    {
      "job": 88062225122,
      "time": 104,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8427561534"
    },
    {
      "job": 88062225100,
      "time": 106,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "8427561837"
    },
    {
      "job": 88062225131,
      "time": 107,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "8427561966"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "lme4",
      "role": "Imports"
    },
    {
      "package": "splines",
      "role": "Imports"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.45.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.44.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "systemsbiology",
    "regression"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 447,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 300,
    "source": "https://www.bioconductor.org/packages/stats/bioc/pmm"
  },
  "_mentions": 7,
  "_searchresults": 5,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/pmm.html",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "hitheatmap",
    "pmm",
    "sharedness"
  ],
  "_datasets": [
    {
      "name": "kinome",
      "title": "Example Data from InfectX",
      "object": "kinome",
      "file": "kinome.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "GeneID",
        "GeneName",
        "condition",
        "siRNA",
        "company",
        "CellCount",
        "InfectionIndex",
        "weight_library"
      ],
      "rows": 79296,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "pmm-package",
      "title": "The PMM-Package",
      "topics": [
        "pmm-package"
      ]
    },
    {
      "page": "hitheatmap",
      "title": "Visualization of the PMM results",
      "topics": [
        "hitheatmap"
      ]
    },
    {
      "page": "kinome",
      "title": "Example Data from InfectX",
      "topics": [
        "kinome"
      ]
    },
    {
      "page": "pmm",
      "title": "Fitting the PMM",
      "topics": [
        "pmm"
      ]
    },
    {
      "page": "sharedness",
      "title": "Sharedness Score",
      "topics": [
        "sharedness"
      ]
    }
  ],
  "_rundeps": [
    "boot",
    "lattice",
    "lme4",
    "MASS",
    "Matrix",
    "minqa",
    "nlme",
    "nloptr",
    "rbibutils",
    "Rcpp",
    "RcppEigen",
    "Rdpack",
    "reformulas"
  ],
  "_vignettes": [
    {
      "source": "pmm-package.Rnw",
      "filename": "pmm-package.pdf",
      "title": "User manual for R-Package PMM",
      "engine": "utils::Sweave",
      "headings": [],
      "created": "2015-03-31 22:01:27",
      "modified": "2015-03-31 22:01:27",
      "commits": 1
    }
  ],
  "_score": 4.146128035678238,
  "_indexed": true,
  "_nocasepkg": "pmm",
  "_universes": [
    "bioc"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.45.0",
      "date": "2026-07-18T08:29:56.000Z",
      "distro": "resolute",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/0f7908f2e55c3504118ae7444bc8e65fdba65e687f9eb477fb91f9ec8b322a24",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.45.0",
      "date": "2026-07-18T08:30:08.000Z",
      "distro": "resolute",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/abd0df100c33323f26db2a8a593a639e1c246f267acfd1c24ace249674e8f8b1",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.45.0",
      "date": "2026-07-18T08:28:17.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/1c274e7d14810ef7bcf36df213898dde0288d841f36a75351b977e6619338317",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.45.0",
      "date": "2026-07-18T08:28:26.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/fcf3cb9e5c82a3ccfe440d87a958e07922ce9b56d6434af1f9a0271a02e6b782",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.45.0",
      "date": "2026-07-18T08:29:07.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/0a973c55c626453b83a7975fa65a41608fd4c0e5bafaba05154b8a5b889ac4ea",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.45.0",
      "date": "2026-07-18T08:28:17.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/7621f850be038746cb37acf271bae2b83a39c3c231a59f8323f9e34773cd0a0b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.45.0",
      "date": "2026-07-18T08:28:03.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/baa05aa03ac0ca178aae1f2cbc2f9f0b5f36e5c75eb6c0a9aaa5ff8017a1b785",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.45.0",
      "date": "2026-07-18T08:28:03.000Z",
      "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8",
      "fileid": "https://r2.ropensci.org/48ba818573ee36cb20d9841de803a8bb46370000868b4e4dffd4a1275c789156",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29637373738"
    }
  ]
}