{
  "_id": "6abb773d99f7aa8c6aa44733",
  "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": "2026-09-29 08:25:46 UTC",
    "User": "root"
  },
  "_user": "bioc",
  "_type": "src",
  "_file": "DNAcopy_1.87.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/73b2a057a99a5c2dda452fd8adcef0356af68d64390824bbda5eb394322aeb43",
  "_filesize": 443447,
  "_sha256": "73b2a057a99a5c2dda452fd8adcef0356af68d64390824bbda5eb394322aeb43",
  "_expires": "2027-01-07T08:30:51.000Z",
  "_created": "2026-09-29T08:25:46.000Z",
  "_published": "2026-09-29T08:30:53.231Z",
  "_bioccheck": {
    "error": 1,
    "warning": 4,
    "note": 14
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629",
  "_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": 109321660560,
      "time": 143,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11021330193"
    },
    {
      "job": 109321660466,
      "time": 150,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11020959616"
    },
    {
      "job": 109321660606,
      "time": 224,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11020459416"
    },
    {
      "job": 109321660566,
      "time": 106,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11020184871"
    },
    {
      "job": 109321660596,
      "time": 156,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021365545"
    },
    {
      "job": 109321660611,
      "time": 101,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11021685017"
    },
    {
      "job": 109321660542,
      "time": 147,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11021725127"
    },
    {
      "job": 109321660636,
      "time": 97,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11020334611"
    },
    {
      "job": 109321660442,
      "time": 225,
      "config": "macos-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021345850"
    },
    {
      "job": 109320483618,
      "time": 205,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11020689573"
    },
    {
      "job": 109321660337,
      "time": 88,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11020294568"
    },
    {
      "job": 109321660517,
      "time": 259,
      "config": "windows-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11021311128"
    },
    {
      "job": 109321660584,
      "time": 115,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "11021570195"
    },
    {
      "job": 109321660553,
      "time": 71,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11020079968"
    },
    {
      "job": 109321660608,
      "time": 175,
      "config": "windows-release-arm64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "11021605283"
    },
    {
      "job": 109321660525,
      "time": 79,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11020159771"
    }
  ],
  "_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": 470,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 6886,
    "source": "https://www.bioconductor.org/packages/stats/bioc/DNAcopy"
  },
  "_mentions": 154,
  "_searchresults": 9,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/DNAcopy.html",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_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": 8.022658449186254,
  "_indexed": true,
  "_nocasepkg": "dnacopy",
  "_universes": [
    "bioc",
    "veseshan"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-09-29T08:28:29.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/48e9a2cc14ae7bd9844b248b7fd3848adb63e55100411f1a7c6a7ba0fc6ac650",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-09-29T08:29:39.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/ba3fcde257d24e1f57d42b3525ff55b470bc2e6cf7ea7eb513a7b8809e2e8d90",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-09-29T08:27:49.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/3e7097a7d23884ba45c049a2ec7c82a67a260c28b7a442b34193c36a4c058ba2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.87.0",
      "date": "2026-09-29T08:28:32.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/e04fd794b1914150346c590ab6814588ad973cc3e29e3b5d00283c8f94cc9697",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-09-29T08:27:32.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/8e0a02dfb9a4d2832c886c7c6b875f922904b2de2b53f881c19e8be21672aef1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-09-29T08:28:11.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/d46dbd4ece51ec984322be5d929eb0be87c5c18ac0bf342bae0ee100305447bd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-09-29T08:27:33.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/01f9bb89c2d5f261e278b34877f7284fe986110e3888c07f34ffe65c4219a698",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.87.0",
      "date": "2026-09-29T08:29:12.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/e88d6f969fdf9aebe5f961bdd959c6282b047c874b35c047428da251b8c6a320",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.87.0",
      "date": "2026-09-29T08:27:37.000Z",
      "arch": "emscripten",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/fc6811ef175f82032ea081719352efd183b44974dc5a9dd4994164f0c9160df6",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-09-29T08:29:59.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/20ddbde6bf4579a503e8b94a6057da08a314e276f8d2c4c2dbfd082080388ca7",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-09-29T08:26:53.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/351b5cacfee0e87c9fbeb6129cb0e6272a07523917841f06aaf88dfea42bb57f",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-09-29T08:26:52.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/587c6aecd87d64af076a81979f7f9210a25a6c222b76cde57c8c018a7abbd315",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-09-29T08:28:39.000Z",
      "arch": "aarch64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/31fc22a249a6dae81e95f1d74b075cc39cc3760c3c16e58678f5fafc5cb1dc4e",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.87.0",
      "date": "2026-09-29T08:26:54.000Z",
      "arch": "x86_64",
      "commit": "c86b069f7af0630c9721aa087f9110a9d9aa40b6",
      "fileid": "https://r2.ropensci.org/4977f6e7784bcdfb4cdf0914583d22e85b165f5aa6df00f378f01a8291be6679",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/36542288629"
    }
  ]
}