{
  "_id": "6a37ac2c3efcd9bda4424736",
  "Package": "DNAcopy",
  "Title": "DNA Copy Number Data Analysis",
  "Version": "1.86.0",
  "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-release.r-universe.dev",
  "Date/Publication": "2026-04-28 12:30:37 UTC",
  "RemoteUrl": "https://github.com/bioc/DNAcopy",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
  "Packaged": {
    "Date": "2026-06-21 09:14:03 UTC",
    "User": "root"
  },
  "MD5sum": "8704e4e27d4b16ca4ca3508b806ae62b",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "DNAcopy_1.86.0.tar.gz",
  "_fileid": "09f20d591360a585dbf13934be35bb209f6e98be655e51ffa960f48361f27f00",
  "_filesize": 443671,
  "_sha256": "09f20d591360a585dbf13934be35bb209f6e98be655e51ffa960f48361f27f00",
  "_created": "2026-06-21T09:14:03.000Z",
  "_published": "2026-06-21T09:17:32.250Z",
  "_jobs": [
    {
      "job": 82557791928,
      "time": 129,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7773843360"
    },
    {
      "job": 82557791947,
      "time": 104,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7773840594"
    },
    {
      "job": 82557791946,
      "time": 170,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7773849192"
    },
    {
      "job": 82557791958,
      "time": 112,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773841769"
    },
    {
      "job": 82557791949,
      "time": 167,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773848620"
    },
    {
      "job": 82557791957,
      "time": 123,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7773842702"
    },
    {
      "job": 82557791956,
      "time": 178,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7773850173"
    },
    {
      "job": 82557791953,
      "time": 120,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773842223"
    },
    {
      "job": 82557791954,
      "time": 143,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773845467"
    },
    {
      "job": 82557637537,
      "time": 145,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773826843"
    },
    {
      "job": 82557791931,
      "time": 88,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773838397"
    },
    {
      "job": 82557791934,
      "time": 99,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7773839542"
    },
    {
      "job": 82557791933,
      "time": 81,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7773837469"
    },
    {
      "job": 82557791935,
      "time": 92,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773838648"
    }
  ],
  "_bioccheck": {
    "error": 1,
    "warning": 4,
    "note": 14
  },
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/DNAcopy",
  "_commit": {
    "id": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777379437
  },
  "_maintainer": {
    "name": "Venkatraman E. Seshan",
    "email": "seshanv@mskcc.org",
    "login": "veseshan",
    "description": "",
    "uuid": 12280668
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 52,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_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": 440,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_mentions": 154,
  "_searchresults": 339,
  "_rbuild": "4.6.0",
  "_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/RELEASE_3_23/README.md",
  "_rundeps": [],
  "_sysdeps": [
    {
      "shlib": "libgfortran",
      "package": "libgfortran5",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "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": 8.723324296557543,
  "_indexed": false,
  "_nocasepkg": "dnacopy",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/DNAcopy",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:55.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "10086cbca79b73152ae48331a0c7c5944912e8db7f1809db51a2bd050cd5d20a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:56.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "dcce30cbe75d3f8f962b3bd9dfe01408343db0707e09f4501d87085a0d03fd11",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:04.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "2fd07cfb89395dcc0bcf5c6bc4e99ee24583b8d248a4e55efe2352f8680d85b6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:51.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "d0463b0394dcc9899609f3818f3ec7b7e035794524b94b7adcd8d02fe450d19a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:01.000Z",
      "arch": "aarch64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "3c20fc5743c7ab7390e0b65936f68fcbfebc030f1a00f5836b7a0e46c03f2440",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:30.000Z",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "b35bbf9bdb6f9a22009954c7237c6cb0cd0c1796e169f47bbd426990a07e4966",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:53.000Z",
      "arch": "aarch64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "951c588e9dd4010150ddd91f884a66fa29ed352683eeb8163eca35ea406ff66e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.86.0",
      "date": "2026-06-21T09:16:16.000Z",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "95bc8a2d53642ebf613aa6becc5b24f5d4069cd69b18112297084ec65e6f90e6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:46.000Z",
      "arch": "emscripten",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "53245233cffeab32fb37c8f38a8078239bb6cfcd8601ede12b51fb1a5d0d1146",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:17.000Z",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "2a760b32ab600df5b940c0375c398be5b00633f0d3394243d86f12d39bcf3efb",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:10.000Z",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "2f37da4f57a3decd9a35e9bd20ca55b2c72c4f9f264cb68dd295a32a1dcc86d1",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.86.0",
      "date": "2026-06-21T09:15:14.000Z",
      "arch": "x86_64",
      "commit": "7901b1ec0e4f1fd42f089e924c5af5e905ca3180",
      "fileid": "aac87b59a942cd6877f338678063cd166da3f0478b89fe1112e157064cdb3ac8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899683579"
    }
  ]
}