{
  "_id": "6a1aafb01d7bb097a09d552f",
  "Package": "quantsmooth",
  "Type": "Package",
  "Title": "Quantile smoothing and genomic visualization of array data",
  "Version": "1.79.0",
  "Date": "2014-10-07",
  "Author": "Jan Oosting, Paul Eilers, Renee Menezes",
  "Maintainer": "Jan Oosting <j.oosting@lumc.nl>",
  "Description": "Implements quantile smoothing as introduced in: Quantile\nsmoothing of array CGH data; Eilers PH, de Menezes RX;\nBioinformatics. 2005 Apr 1;21(7):1146-53.",
  "License": "GPL-2",
  "biocViews": "Visualization, CopyNumberVariation",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:31:50 UTC",
  "RemoteUrl": "https://github.com/bioc/quantsmooth",
  "RemoteRef": "HEAD",
  "RemoteSha": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-30 07:04:44 UTC",
    "User": "root"
  },
  "MD5sum": "6bc52d4f033c490a9a8981b06f2f3965",
  "_user": "bioc",
  "_type": "src",
  "_file": "quantsmooth_1.79.0.tar.gz",
  "_fileid": "2583b2741685dd6f0fb1672fd5871833817fa7074d34371709390b01889071af",
  "_filesize": 365919,
  "_sha256": "2583b2741685dd6f0fb1672fd5871833817fa7074d34371709390b01889071af",
  "_created": "2026-05-30T07:04:44.000Z",
  "_published": "2026-05-30T09:36:48.062Z",
  "_jobs": [
    {
      "job": 78632250858,
      "time": 160,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7306326101"
    },
    {
      "job": 78632250895,
      "time": 157,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306325707"
    },
    {
      "job": 78632250874,
      "time": 183,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306328795"
    },
    {
      "job": 78632250848,
      "time": 87,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7307177003"
    },
    {
      "job": 78632250847,
      "time": 97,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7307177630"
    },
    {
      "job": 78632117423,
      "time": 138,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306306666"
    },
    {
      "job": 78632250864,
      "time": 90,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306317726"
    },
    {
      "job": 78632250869,
      "time": 90,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306317725"
    },
    {
      "job": 78632250884,
      "time": 89,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7306317643"
    },
    {
      "job": 78632250883,
      "time": 98,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306318691"
    }
  ],
  "_bioccheck": {
    "error": 2,
    "warning": 3,
    "note": 14
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/quantsmooth",
  "_commit": {
    "id": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
    "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": 1777379510
  },
  "_maintainer": {
    "name": "Jan Oosting",
    "email": "j.oosting@lumc.nl",
    "login": "janoosting",
    "description": "",
    "uuid": 758684
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10.0",
      "role": "Depends"
    },
    {
      "package": "quantreg",
      "role": "Depends"
    },
    {
      "package": "grid",
      "role": "Depends"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 7,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.79.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.78.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "visualization",
    "copynumbervariation"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 1240,
    "source": "https://www.bioconductor.org/packages/stats/bioc/quantsmooth"
  },
  "_mentions": 3,
  "_searchresults": 47,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/quantsmooth.html",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "characterCHR",
    "drawSimpleChrom",
    "getChangedIdx",
    "getChangedRegions",
    "getLambdaMin",
    "grid.chromosome",
    "lengthChromosome",
    "numericCHR",
    "paintCytobands",
    "plotChromosome",
    "plotSmoothed",
    "position2Cytoband",
    "prepareGenomePlot",
    "quantsmooth",
    "quantsmooth.cv",
    "quantsmooth.seg",
    "scaleto"
  ],
  "_datasets": [
    {
      "name": "affy.cn",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "T1",
        "T2",
        "T3"
      ],
      "rows": 358,
      "table": true,
      "tojson": true
    },
    {
      "name": "affy.pos",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "bac.cn",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "T1",
        "T2",
        "T3"
      ],
      "rows": 112,
      "table": true,
      "tojson": true
    },
    {
      "name": "bac.pos",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "chrom.bands",
      "title": "Dataset of human chromosomes and their banding patterns",
      "object": "chrom.bands",
      "file": "chrom.bands.hg18.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "chr",
        "arm",
        "band",
        "ISCN.top",
        "ISCN.bot",
        "bases.top",
        "bases.bot",
        "stain",
        "cM.top",
        "cM.bot",
        "n.markers",
        "p.markers"
      ],
      "rows": 4068,
      "table": true,
      "tojson": true
    },
    {
      "name": "chrom.bands.hg18",
      "title": "Dataset of human chromosomes and their banding patterns",
      "object": "chrom.bands.hg18",
      "file": "chrom.bands.hg18.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5"
      ],
      "rows": 862,
      "table": true,
      "tojson": true
    },
    {
      "name": "chrom.bands.hg19",
      "title": "Dataset of human chromosomes and their banding patterns",
      "object": "chrom.bands.hg19",
      "file": "chrom.bands.hg19.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5"
      ],
      "rows": 931,
      "table": true,
      "tojson": true
    },
    {
      "name": "chrom.bands.hg38",
      "title": "Dataset of human chromosomes and their banding patterns",
      "object": "chrom.bands.hg38",
      "file": "chrom.bands.hg38.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5"
      ],
      "rows": 1293,
      "table": true,
      "tojson": true
    },
    {
      "name": "chrom.bands.mm10",
      "title": "Dataset of human chromosomes and their banding patterns",
      "object": "chrom.bands.mm10",
      "file": "chrom.bands.mm10.rda",
      "class": [
        "data.frame"
      ],
      "fields": [
        "V1",
        "V2",
        "V3",
        "V4",
        "V5"
      ],
      "rows": 448,
      "table": true,
      "tojson": true
    },
    {
      "name": "ill.cn",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "T1",
        "T2",
        "T3"
      ],
      "rows": 207,
      "table": true,
      "tojson": true
    },
    {
      "name": "ill.pos",
      "title": "Example data from several quantitative genomic methods",
      "object": "chr14",
      "file": "chr14.rda",
      "class": [
        "integer"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "chrom.bands",
      "title": "Dataset of human chromosomes and their banding patterns",
      "topics": [
        "chrom.bands",
        "chrom.bands.hg18",
        "chrom.bands.hg19",
        "chrom.bands.hg38",
        "chrom.bands.mm10"
      ]
    },
    {
      "page": "Chromosome14",
      "title": "Example data from several quantitative genomic methods",
      "topics": [
        "affy.cn",
        "affy.pos",
        "bac.cn",
        "bac.pos",
        "chr14",
        "ill.cn",
        "ill.pos"
      ]
    },
    {
      "page": "drawSimpleChrom",
      "title": "Draw chromosome-like icons",
      "topics": [
        "drawSimpleChrom"
      ]
    },
    {
      "page": "getChangedRegions",
      "title": "getChangedRegions",
      "topics": [
        "getChangedRegions"
      ]
    },
    {
      "page": "getLambdaMin",
      "title": "getLambdaMin",
      "topics": [
        "getLambdaMin"
      ]
    },
    {
      "page": "grid.chromosome",
      "title": "Draw a chromosome using the grid package",
      "topics": [
        "grid.chromosome"
      ]
    },
    {
      "page": "lengthChromosome",
      "title": "Retrieve chromosomal length",
      "topics": [
        "lengthChromosome"
      ]
    },
    {
      "page": "numericCHR",
      "title": "Conversion of chromosome IDs between numeric and character",
      "topics": [
        "characterCHR",
        "numericCHR"
      ]
    },
    {
      "page": "paintCytobands",
      "title": "Paint a chromosomal idiogram",
      "topics": [
        "paintCytobands"
      ]
    },
    {
      "page": "plotChromosome",
      "title": "Wrapper for plotSmoothed",
      "topics": [
        "plotChromosome"
      ]
    },
    {
      "page": "plotSmoothed",
      "title": "plotSmoothed",
      "topics": [
        "plotSmoothed"
      ]
    },
    {
      "page": "position2Cytoband",
      "title": "Determine cytoband position based on location of probe",
      "topics": [
        "position2Cytoband"
      ]
    },
    {
      "page": "prepareGenomePlot",
      "title": "Set up a full genome plot",
      "topics": [
        "prepareGenomePlot"
      ]
    },
    {
      "page": "quantsmooth",
      "title": "quantsmooth",
      "topics": [
        "quantsmooth"
      ]
    },
    {
      "page": "quantsmooth.cv",
      "title": "quantsmooth.cv",
      "topics": [
        "quantsmooth.cv"
      ]
    },
    {
      "page": "quantsmooth.seg",
      "title": "quantsmooth.seg",
      "topics": [
        "quantsmooth.seg"
      ]
    },
    {
      "page": "scaleto",
      "title": "Scales data within a range to a new range",
      "topics": [
        "scaleto"
      ]
    }
  ],
  "_rundeps": [
    "lattice",
    "MASS",
    "Matrix",
    "MatrixModels",
    "quantreg",
    "SparseM",
    "survival"
  ],
  "_vignettes": [
    {
      "source": "quantsmooth.Rnw",
      "filename": "quantsmooth.pdf",
      "title": "quantsmooth",
      "engine": "utils::Sweave",
      "headings": [],
      "created": "2013-11-01 19:57:47",
      "modified": "2013-11-01 19:57:47",
      "commits": 1
    }
  ],
  "_score": 5.865890088215515,
  "_indexed": true,
  "_nocasepkg": "quantsmooth",
  "_universes": [
    "bioc",
    "janoosting"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.79.0",
      "date": "2026-05-30T07:07:04.000Z",
      "distro": "noble",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "487db47a9057448e61cef480ad27e1fef3b30fec826b4977e740ea00fd974610",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.79.0",
      "date": "2026-05-30T07:07:34.000Z",
      "distro": "noble",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "eef378aa9f706ac0954f669e5fe0fbb835dff953f6c19028834c36c80ea167a5",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.79.0",
      "date": "2026-05-30T09:27:56.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "eff23756c702d2f184901790c1c67be8df823d39eb6424a535411031a701ca85",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.79.0",
      "date": "2026-05-30T09:28:00.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "b506b03b3f426d87bc90cb095377e42842862ce5c226949475c1b6123453a601",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.79.0",
      "date": "2026-05-30T07:06:33.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "a994b5487f170d7b414327e60c10f85155145c7297243ac5a8668e4152466362",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.79.0",
      "date": "2026-05-30T07:05:53.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "3a99626cec288749bc40b10a8ede4dd9cbc22439afbd0b4b86c276acf35baa5e",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.79.0",
      "date": "2026-05-30T07:05:55.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "b0baef8224e35c481dae095a18c72edd3a085921e68d7901ede64ab257b98c6d",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.79.0",
      "date": "2026-05-30T07:06:03.000Z",
      "commit": "a4249466a7ee54e769e7427dfbeff02e709f48ea",
      "fileid": "fabef0e17264720d11e9ceef43c58158ce3baeae0e457c03325d9eba3b60e420",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677558509"
    }
  ]
}