{
  "_id": "6a1a79391d7bb097a09d330d",
  "Package": "preprocessCore",
  "Version": "1.75.0",
  "Title": "A collection of pre-processing functions",
  "Author": "Ben Bolstad <bmb@bmbolstad.com>",
  "Maintainer": "Ben Bolstad <bmb@bmbolstad.com>",
  "Description": "A library of core preprocessing routines.",
  "License": "LGPL (>= 2)",
  "URL": "https://github.com/bmbolstad/preprocessCore",
  "Collate": "normalize.quantiles.R quantile_extensions.R\nrma.background.correct.R rcModel.R colSummarize.R\nsubColSummarize.R plmr.R plmd.R",
  "LazyLoad": "yes",
  "biocViews": "Infrastructure",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:30:02 UTC",
  "RemoteUrl": "https://github.com/bioc/preprocessCore",
  "RemoteRef": "HEAD",
  "RemoteSha": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-05-30 05:25:17 UTC",
    "User": "root"
  },
  "MD5sum": "19ffebcdebef01b74540c17724073ba9",
  "_user": "bioc",
  "_type": "src",
  "_file": "preprocessCore_1.75.0.tar.gz",
  "_fileid": "23ff81cb96fd405a9b37b2e9f46f812957922d95c83382216568eda1f1b9af7c",
  "_filesize": 287560,
  "_sha256": "23ff81cb96fd405a9b37b2e9f46f812957922d95c83382216568eda1f1b9af7c",
  "_created": "2026-05-30T05:25:17.000Z",
  "_published": "2026-05-30T05:44:25.674Z",
  "_jobs": [
    {
      "job": 78626751267,
      "time": 148,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7305684002"
    },
    {
      "job": 78626751285,
      "time": 131,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7305682400"
    },
    {
      "job": 78626751278,
      "time": 174,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7305686630"
    },
    {
      "job": 78626751288,
      "time": 131,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7305682481"
    },
    {
      "job": 78626751282,
      "time": 128,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7305682286"
    },
    {
      "job": 78626751289,
      "time": 90,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7305770650"
    },
    {
      "job": 78626751297,
      "time": 226,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7305785423"
    },
    {
      "job": 78626751287,
      "time": 96,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7305774028"
    },
    {
      "job": 78626751290,
      "time": 173,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7305777972"
    },
    {
      "job": 78626636114,
      "time": 125,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7305668990"
    },
    {
      "job": 78626751270,
      "time": 87,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "FAIL",
      "artifact": ""
    },
    {
      "job": 78626751284,
      "time": 177,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7305686877"
    },
    {
      "job": 78626751280,
      "time": 80,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7305677423"
    },
    {
      "job": 78626751286,
      "time": 79,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7305677275"
    }
  ],
  "_bioccheck": {
    "error": 3,
    "warning": 0,
    "note": 10
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/preprocessCore",
  "_commit": {
    "id": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
    "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": 1777379402
  },
  "_maintainer": {
    "name": "Ben Bolstad",
    "email": "bmb@bmbolstad.com",
    "login": "bmbolstad",
    "description": "",
    "uuid": 5719304
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "stats",
      "role": "Imports"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 214,
  "_updates": [
    {
      "week": "2025-25",
      "n": 3
    },
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.75.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.74.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "infrastructure",
    "openblas"
  ],
  "_stars": 20,
  "_contributors": [
    {
      "user": "bmbolstad",
      "count": 71,
      "uuid": 5719304
    },
    {
      "user": "dtenenba",
      "count": 23,
      "uuid": 2286826
    },
    {
      "user": "nturaga",
      "count": 14,
      "uuid": 2746443
    },
    {
      "user": "jwokaty",
      "count": 13,
      "uuid": 1744257
    },
    {
      "user": "wkumler",
      "count": 3,
      "uuid": 43116923
    },
    {
      "user": "hpages",
      "count": 3,
      "uuid": 8810451
    },
    {
      "user": "vobencha",
      "count": 2,
      "uuid": 2466173
    },
    {
      "user": "cvanderaa",
      "count": 1,
      "uuid": 43441105
    },
    {
      "user": "spotrh",
      "count": 1,
      "uuid": 1318972
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 23338,
    "source": "https://www.bioconductor.org/packages/stats/bioc/preprocessCore"
  },
  "_mentions": 146,
  "_devurl": "https://github.com/bmbolstad/preprocesscore",
  "_searchresults": 2792,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/preprocessCore.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/bmbolstad/preprocesscore",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "colSummarizeAvg",
    "colSummarizeAvgLog",
    "colSummarizeBiweight",
    "colSummarizeBiweightLog",
    "colSummarizeLogAvg",
    "colSummarizeLogMedian",
    "colSummarizeMedian",
    "colSummarizeMedianLog",
    "colSummarizeMedianpolish",
    "colSummarizeMedianpolishLog",
    "convert.group.labels",
    "normalize.quantiles",
    "normalize.quantiles.determine.target",
    "normalize.quantiles.in.blocks",
    "normalize.quantiles.robust",
    "normalize.quantiles.use.target",
    "rcModelMedianPolish",
    "rcModelPLM",
    "rcModelPLMd",
    "rcModelPLMr",
    "rcModelPLMrc",
    "rcModelPLMrr",
    "rcModelWPLM",
    "rcModelWPLMr",
    "rcModelWPLMrc",
    "rcModelWPLMrr",
    "rma.background.correct",
    "subColSummarizeAvg",
    "subColSummarizeAvgLog",
    "subColSummarizeBiweight",
    "subColSummarizeBiweightLog",
    "subColSummarizeLogAvg",
    "subColSummarizeLogMedian",
    "subColSummarizeMedian",
    "subColSummarizeMedianLog",
    "subColSummarizeMedianpolish",
    "subColSummarizeMedianpolishLog",
    "subrcModelMedianPolish",
    "subrcModelPLM"
  ],
  "_help": [
    {
      "page": "colSummarize",
      "title": "Summarize the column of matrices",
      "topics": [
        "colSummarizeAvg",
        "colSummarizeAvgLog",
        "colSummarizeBiweight",
        "colSummarizeBiweightLog",
        "colSummarizeLogAvg",
        "colSummarizeLogMedian",
        "colSummarizeMedian",
        "colSummarizeMedianLog",
        "colSummarizeMedianpolish",
        "colSummarizeMedianpolishLog"
      ]
    },
    {
      "page": "normalize.quantiles",
      "title": "Quantile Normalization",
      "topics": [
        "normalize.quantiles"
      ]
    },
    {
      "page": "normalize.quantiles.in.blocks",
      "title": "Quantile Normalization carried out separately within blocks of rows",
      "topics": [
        "normalize.quantiles.in.blocks"
      ]
    },
    {
      "page": "normalize.quantiles.robust",
      "title": "Robust Quantile Normalization",
      "topics": [
        "normalize.AffyBatch.quantiles.robust",
        "normalize.quantiles.robust"
      ]
    },
    {
      "page": "normalize.quantiles.target",
      "title": "Quantile Normalization using a specified target distribution vector",
      "topics": [
        "normalize.quantiles.determine.target",
        "normalize.quantiles.use.target"
      ]
    },
    {
      "page": "rcModelPLMd",
      "title": "Fit robust row-column models to a matrix",
      "topics": [
        "rcModelPLMd"
      ]
    },
    {
      "page": "rcModelPLMr",
      "title": "Fit robust row-column models to a matrix",
      "topics": [
        "rcModelPLMr",
        "rcModelPLMrc",
        "rcModelPLMrr",
        "rcModelWPLMr",
        "rcModelWPLMrc",
        "rcModelWPLMrr"
      ]
    },
    {
      "page": "rcModels",
      "title": "Fit row-column model to a matrix",
      "topics": [
        "rcModelMedianPolish",
        "rcModelPLM",
        "rcModelWPLM"
      ]
    },
    {
      "page": "rma.background.correct",
      "title": "RMA Background Correction",
      "topics": [
        "rma.background.correct"
      ]
    },
    {
      "page": "subColSummarize",
      "title": "Summarize columns when divided into groups of rows",
      "topics": [
        "convert.group.labels",
        "subColSummarizeAvg",
        "subColSummarizeAvgLog",
        "subColSummarizeBiweight",
        "subColSummarizeBiweightLog",
        "subColSummarizeLogAvg",
        "subColSummarizeLogMedian",
        "subColSummarizeMedian",
        "subColSummarizeMedianLog",
        "subColSummarizeMedianpolish",
        "subColSummarizeMedianpolishLog"
      ]
    },
    {
      "page": "subrcModels",
      "title": "Fit row-column model to a matrix",
      "topics": [
        "subrcModelMedianPolish",
        "subrcModelPLM",
        "subrcModelWPLM"
      ]
    }
  ],
  "_rundeps": [],
  "_sysdeps": [
    {
      "shlib": "liblapack",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    }
  ],
  "_score": 12.302755314901809,
  "_indexed": true,
  "_nocasepkg": "preprocesscore",
  "_universes": [
    "bioc",
    "bmbolstad"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.75.0",
      "date": "2026-05-30T05:27:35.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "046addea572d69219375c7e8e60a47d65e2eaa84b86bc407ecb087c1c2c0c3a1",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.75.0",
      "date": "2026-05-30T05:28:16.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "2728b3ef8483026d2f4ce2e36020620cdb93b215876fd0edae908204b86ac967",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.75.0",
      "date": "2026-05-30T05:27:38.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "3cd213c3639b284d6384f2eb6dca75bf10c35f05395feb34341855ad3e8474a0",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.75.0",
      "date": "2026-05-30T05:27:33.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "721334031de26b6d6be836266f71c6dc72ab928fd481644d1deea48749ae8a93",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.75.0",
      "date": "2026-05-30T05:41:43.000Z",
      "arch": "aarch64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "28740b0d17b16bfa08881de7fd80d1a767ffec4e14bb6d5147d1bb3dbe8a269a",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.75.0",
      "date": "2026-05-30T05:43:25.000Z",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "c6e72681374272b1b7cb94144d4f18326f66a7cbc54705054c61d764184b3f47",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.75.0",
      "date": "2026-05-30T05:42:12.000Z",
      "arch": "aarch64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "a499efb82cf0cda104b4b822dc93627a8f9a282bd8d77ca95c63c856e23f2abd",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.75.0",
      "date": "2026-05-30T05:42:32.000Z",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "fc1f1557b9b26dd996f67c40c23f105e2b503c0e7d59c708e3ff2579f14eec37",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.75.0",
      "date": "2026-05-30T05:27:34.000Z",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "1e98155862fdcb500befae66a053d84962cfd5da7e08be8c202b98cbbaf3b884",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.75.0",
      "date": "2026-05-30T05:26:24.000Z",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "1ac607a8abdc5227aeefee928dc66b3392655401556ed47af4376c49c93dbe70",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.75.0",
      "date": "2026-05-30T05:26:23.000Z",
      "arch": "x86_64",
      "commit": "4e5bfc285fb8752714e968cad1cbeafcdffe8203",
      "fileid": "12c2db37c7cc10de56b3c50137d5a2db28738f6a5de0f1db817f0a65394441d1",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26675589009"
    }
  ]
}