{
  "_id": "6a61d1e1768d0b54cfc7905f",
  "Package": "DNAcopy",
  "Title": "DNA Copy Number Data Analysis",
  "Version": "1.87.0",
  "Author": "Venkatraman E. Seshan, Adam Olshen",
  "Description": "Implements the circular binary segmentation (CBS)\nalgorithm to segment DNA copy number data and identify genomic\nregions with abnormal copy number.",
  "Maintainer": "Venkatraman E. Seshan <seshanv@mskcc.org>",
  "LazyData": "yes",
  "License": "GPL (>= 2)",
  "biocViews": "Microarray, CopyNumberVariation",
  "NeedsCompilation": "yes",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:30:37 UTC",
  "RemoteUrl": "https://github.com/bioc/DNAcopy",
  "RemoteRef": "HEAD",
  "RemoteSha": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
  "Packaged": {
    "Date": "2026-07-23 08:13:10 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "DNAcopy_1.87.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/c1e3f70cb7b54202ee5d135464b8350879dbecd3f70ad5e3c612ea5100b5ecb0",
  "_filesize": 441687,
  "_sha256": "c1e3f70cb7b54202ee5d135464b8350879dbecd3f70ad5e3c612ea5100b5ecb0",
  "_expires": "2026-10-31T08:33:35.000Z",
  "_created": "2026-07-23T08:13:10.000Z",
  "_published": "2026-07-23T08:33:37.031Z",
  "_bioccheck": {
    "error": 1,
    "warning": 5,
    "note": 14
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667",
  "_status": "success",
  "_upstream": "https://github.com/bioc/DNAcopy",
  "_commit": {
    "id": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
    "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": 1777379437
  },
  "_maintainer": {
    "name": "Venkatraman E. Seshan",
    "email": "seshanv@mskcc.org",
    "login": "veseshan",
    "description": "",
    "uuid": 12280668
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 89152191313,
      "time": 140,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "8556915804"
    },
    {
      "job": 89152191298,
      "time": 94,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8556900702"
    },
    {
      "job": 89152191334,
      "time": 180,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8556928659"
    },
    {
      "job": 89152191335,
      "time": 95,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556900972"
    },
    {
      "job": 89152191328,
      "time": 162,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556922782"
    },
    {
      "job": 89152191340,
      "time": 78,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8556898858"
    },
    {
      "job": 89152191299,
      "time": 206,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8556940710"
    },
    {
      "job": 89152191314,
      "time": 99,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556902343"
    },
    {
      "job": 89152191325,
      "time": 189,
      "config": "macos-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556935616"
    },
    {
      "job": 89151759223,
      "time": 166,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556870324"
    },
    {
      "job": 89152191288,
      "time": 92,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8556900216"
    },
    {
      "job": 89152191354,
      "time": 75,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "8556894124"
    },
    {
      "job": 89152191366,
      "time": 87,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "8556898927"
    },
    {
      "job": 89152191301,
      "time": 86,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8556898703"
    }
  ],
  "_registered": true,
  "_dependencies": [],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 51,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.87.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.86.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "microarray",
    "copynumbervariation",
    "fortran"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 450,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 6536,
    "source": "https://www.bioconductor.org/packages/stats/bioc/DNAcopy"
  },
  "_mentions": 154,
  "_searchresults": 264,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/DNAcopy.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/veseshan/dnacopy",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "CNA",
    "exon.segment",
    "getbdry",
    "glFrequency",
    "plotSample",
    "segment",
    "segments.p",
    "segments.summary",
    "smooth.CNA",
    "zoomIntoRegion"
  ],
  "_datasets": [
    {
      "name": "coriell",
      "title": "Array CGH data set of Coriell cell lines",
      "object": "coriell",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Clone",
        "Chromosome",
        "Position",
        "Coriell.05296",
        "Coriell.13330"
      ],
      "rows": 2271,
      "table": true,
      "tojson": true
    },
    {
      "name": "cytoBand",
      "title": "Cytogenic band data",
      "object": "cytoBand",
      "class": [
        "data.frame"
      ],
      "fields": [
        "chromNum",
        "chromStart",
        "chromEnd",
        "bandname",
        "gieStain"
      ],
      "rows": 862,
      "table": true,
      "tojson": true
    },
    {
      "name": "default.DNAcopy.bdry",
      "title": "Sequential stopping boundary",
      "object": "default.DNAcopy.bdry",
      "class": [
        "integer"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "CNA",
      "title": "Create `Copy Number Array' data object",
      "topics": [
        "CNA",
        "print.CNA"
      ]
    },
    {
      "page": "coriell",
      "title": "Array CGH data set of Coriell cell lines",
      "topics": [
        "coriell"
      ]
    },
    {
      "page": "cytoBand",
      "title": "Cytogenic band data",
      "topics": [
        "cytoBand"
      ]
    },
    {
      "page": "DNAcopy",
      "title": "Results of segmenting a CNA data object",
      "topics": [
        "DNAcopy",
        "print.DNAcopy"
      ]
    },
    {
      "page": "exon.segment",
      "title": "Binary segmentation of exon data.",
      "topics": [
        "exon.segment"
      ]
    },
    {
      "page": "getbdry",
      "title": "Sequential stopping boundary",
      "topics": [
        "default.DNAcopy.bdry",
        "getbdry"
      ]
    },
    {
      "page": "glFrequency",
      "title": "Additional summary measured for the segments",
      "topics": [
        "glFrequency"
      ]
    },
    {
      "page": "plot.DNAcopy",
      "title": "Plot the data and results from segment of a CNA object",
      "topics": [
        "plot.DNAcopy"
      ]
    },
    {
      "page": "plotSample",
      "title": "Plot the data and results from segmentation for a single sample",
      "topics": [
        "plotSample"
      ]
    },
    {
      "page": "segment",
      "title": "Genome Segmentation Program",
      "topics": [
        "segment"
      ]
    },
    {
      "page": "segments.p",
      "title": "p-values for the change-points",
      "topics": [
        "segments.p"
      ]
    },
    {
      "page": "segments.summary",
      "title": "Additional summary measured for the segments",
      "topics": [
        "segments.summary"
      ]
    },
    {
      "page": "smooth.CNA",
      "title": "Smooth a `Copy Number Array' data object",
      "topics": [
        "smooth.CNA"
      ]
    },
    {
      "page": "subset.CNA",
      "title": "Subset a `Copy Number Array' data object",
      "topics": [
        "subset.CNA"
      ]
    },
    {
      "page": "subset.DNAcopy",
      "title": "Subset a DNAcopy data object",
      "topics": [
        "subset.DNAcopy"
      ]
    },
    {
      "page": "zoomIntoRegion",
      "title": "Zoomed in view of genomic region",
      "topics": [
        "zoomIntoRegion"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/DNAcopy/raw/HEAD/README.md",
  "_rundeps": [],
  "_sysdeps": [
    {
      "shlib": "libgfortran",
      "package": "libgfortran5",
      "source": "gcc",
      "version": "16-20260322-1ubuntu1",
      "name": "fortran",
      "homepage": "http://gcc.gnu.org/",
      "description": "Runtime library for GNU Fortran applications"
    }
  ],
  "_vignettes": [
    {
      "source": "DNAcopy.Rnw",
      "filename": "DNAcopy.pdf",
      "title": "DNAcopy",
      "engine": "utils::Sweave",
      "headings": [
        "Overview",
        "Data",
        "An Example",
        "Tips"
      ],
      "created": "2013-11-01 19:51:46",
      "modified": "2013-11-01 19:51:46",
      "commits": 1
    }
  ],
  "_score": 9.421607401211789,
  "_indexed": true,
  "_nocasepkg": "dnacopy",
  "_universes": [
    "bioc",
    "veseshan"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-07-23T08:15:02.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/603f9495dc06eee43f12edc80a388c08544b309257c5c1211c5d99a68b3e3e33",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-07-23T08:16:24.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/620e581d655fe088c70fd5a4afa45ac835185519e828a4d3c468523aa372e6fa",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-07-23T08:15:02.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/fe5622905ba7ce635a28df20859139efb7fa039354f8f73a1ef334c3001ae32c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-07-23T08:16:05.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/ad373e660974f66fdbf83a10a086d72185ab04ad950986cbc31086c32372bdd1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-07-23T08:14:53.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/89610150690d908278ca9ecf3640f1328c55971025b448e0ea630d0691fcc833",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-07-23T08:16:46.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/74e3ce62424cd03698ac489c97e808b70876b10f194f507a2bd6097cc1a20be2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-07-23T08:14:57.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/5a19ae921a3f651c5538c28c46742094a8123224ad4bed7bdd87ff96fa359f75",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-07-23T08:16:30.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/39ff0aa315500322affdc051cfd2961cd4ab398f7c96379f012c9cee7ca73c8d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.87.0",
      "date": "2026-07-23T08:15:08.000Z",
      "arch": "emscripten",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/2c6539057582f89577b40f784e48a3d79bec9f3c466477509115eeaeb792027e",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-07-23T08:14:18.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/a6092cb1ec52ca142e6212f46f7696f9fc796bcda8be363ae4833c062b3e8360",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-07-23T08:14:34.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/0359eb117e8c9821cc67d62b84ea0bb14ee16693eb0d46551e8e583b4153180e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-07-23T08:14:37.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/5a417aa4d53b79dbe2bc6633cd2d22536ad477e00c6eb85be4715b8bd3b9cd69",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/29990411667"
    }
  ]
}