{
  "_id": "6a141647acfb0bcc41d3c205",
  "Package": "BisRNA",
  "Type": "Package",
  "Title": "Analysis of RNA Cytosine-5 Methylation",
  "Version": "0.2.2",
  "Author": "C Legrand",
  "Maintainer": "Carine Legrand <c.legrand@dkfz.de>",
  "Description": "Bisulfite-treated RNA non-conversion in a set of samples\nis analysed as follows : each sample's non-conversion\ndistribution is identified to a Poisson distribution. P-values\nadjusted for multiple testing are calculated in each sample.\nCombined non-conversion P-values and standard errors are\ncalculated on the intersection of the set of samples. For\nfurther details, see C Legrand, F Tuorto, M Hartmann, R\nLiebers, D Jakob, M Helm and F Lyko (2017)\n<doi:10.1101/gr.210666.116>.",
  "Date": "2017-12-15",
  "License": "GPL (>= 2)",
  "LazyData": "TRUE",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-25 09:26:15 UTC",
    "User": "root"
  },
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2017-12-15 12:33:54 UTC",
  "RemoteUrl": "https://github.com/cran/BisRNA",
  "RemoteRef": "HEAD",
  "RemoteSha": "37e5fae7c3c16070e773d7fa514138ca7ada568f",
  "MD5sum": "65277254717ddab88ef9f75a0d677848",
  "_user": "cran",
  "_type": "src",
  "_file": "BisRNA_0.2.2.tar.gz",
  "_fileid": "00bf6bfcecddff9581a3aee3598ae03c3f00eae69a7ec08b047718eba35d7059",
  "_filesize": 127529,
  "_sha256": "00bf6bfcecddff9581a3aee3598ae03c3f00eae69a7ec08b047718eba35d7059",
  "_created": "2026-05-25T09:26:15.000Z",
  "_published": "2026-05-25T09:28:39.328Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77688338673,
      "time": 107,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7195481720"
    },
    {
      "job": 77688338716,
      "time": 103,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7195480966"
    },
    {
      "job": 77687988655,
      "time": 158,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7195452805"
    },
    {
      "job": 77688338628,
      "time": 98,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7195479346"
    }
  ],
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/26393307955",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/BisRNA",
  "_commit": {
    "id": "37e5fae7c3c16070e773d7fa514138ca7ada568f",
    "author": "Carine Legrand <c.legrand@dkfz.de>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 0.2.2\n",
    "time": 1513341234
  },
  "_maintainer": {
    "name": "Carine Legrand",
    "email": "c.legrand@dkfz.de"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.3.2",
      "role": "Depends"
    },
    {
      "package": "MASS",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "IHW",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 123,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/BisRNA"
  },
  "_mentions": 1,
  "_searchresults": 21,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/BisRNA.html",
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "manual.pdf"
  ],
  "_realowner": "cran",
  "_cranurl": false,
  "_releases": [
    {
      "version": "0.2.1",
      "date": "2017-04-12"
    },
    {
      "version": "0.2.2",
      "date": "2017-12-15"
    }
  ],
  "_exports": [
    "class.BisXP",
    "fisher.method",
    "read.BisXP",
    "RNAmeth.poisson.par",
    "RNAmeth.poisson.test",
    "samples.combine"
  ],
  "_datasets": [
    {
      "name": "Bisdata1",
      "title": "Synthetic sample 1 of RNA bisulfite sequencing",
      "object": "Bisdata",
      "class": [
        "data.frame"
      ],
      "fields": [
        "RNA",
        "Cpos",
        "coverage",
        "ncratio"
      ],
      "rows": 335,
      "table": true,
      "tojson": true
    },
    {
      "name": "Bisdata2",
      "title": "Synthetic sample 2 of RNA bisulfite sequencing",
      "object": "Bisdata",
      "class": [
        "data.frame"
      ],
      "fields": [
        "RNA",
        "Cpos",
        "coverage",
        "ncratio"
      ],
      "rows": 345,
      "table": true,
      "tojson": true
    },
    {
      "name": "Bisdata3",
      "title": "Synthetic sample 3 of RNA bisulfite sequencing",
      "object": "Bisdata",
      "class": [
        "data.frame"
      ],
      "fields": [
        "RNA",
        "Cpos",
        "coverage",
        "ncratio"
      ],
      "rows": 330,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "BisRNA-package",
      "title": "Analysis of RNA Cytosine-5 Methylation from bisulfite sequencing experiments",
      "topics": [
        "BisRNA-package",
        "BisRNA"
      ]
    },
    {
      "page": "Bisdata",
      "title": "Three synthetic samples of RNA bisulfite sequencing for examples and tests",
      "topics": [
        "Bisdata"
      ]
    },
    {
      "page": "Bisdata1",
      "title": "Synthetic sample 1 of RNA bisulfite sequencing",
      "topics": [
        "Bisdata1"
      ]
    },
    {
      "page": "Bisdata2",
      "title": "Synthetic sample 2 of RNA bisulfite sequencing",
      "topics": [
        "Bisdata2"
      ]
    },
    {
      "page": "Bisdata3",
      "title": "Synthetic sample 3 of RNA bisulfite sequencing",
      "topics": [
        "Bisdata3"
      ]
    },
    {
      "page": "class.BisXP",
      "title": "Cast bisulfite experiment data into a BisXP object",
      "topics": [
        "class.BisXP"
      ]
    },
    {
      "page": "fisher.method",
      "title": "Function implementing Fisher's method to combine independent p-values",
      "topics": [
        "fisher.method"
      ]
    },
    {
      "page": "intersectMatrix",
      "title": "Take intersection of 2 tables",
      "topics": [
        "intersectMatrix"
      ]
    },
    {
      "page": "read.BisXP",
      "title": "Read RNA bisulfite experiment data and cast it into a BisXP object",
      "topics": [
        "read.BisXP"
      ]
    },
    {
      "page": "RNAmeth.poisson.par",
      "title": "Find ratio (Poisson parameter / coverage) for one sample of bisulfite-converted RNA",
      "topics": [
        "RNAmeth.poisson.par"
      ]
    },
    {
      "page": "RNAmeth.poisson.test",
      "title": "Test RNA Cytosine methylation based on Poisson model distribution",
      "topics": [
        "RNAmeth.poisson.test"
      ]
    },
    {
      "page": "samples.combine",
      "title": "Combine samples p-values and ratios",
      "topics": [
        "samples.combine"
      ]
    },
    {
      "page": "testMeth",
      "title": "Apply poisson.test to BS coverage and non-conversion ratio.",
      "topics": [
        "testMeth"
      ]
    }
  ],
  "_rundeps": [
    "MASS"
  ],
  "_score": 1.3222192947339193,
  "_indexed": true,
  "_nocasepkg": "bisrna",
  "_universes": [
    "cran"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.2.2",
      "date": "2026-05-25T09:28:12.000Z",
      "distro": "noble",
      "commit": "37e5fae7c3c16070e773d7fa514138ca7ada568f",
      "fileid": "5c47ad279a54cc5b266cec24c2d9664d9ac67c61af08a41c07c5b5fef80f8b51",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/26393307955"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.2.2",
      "date": "2026-05-25T09:28:08.000Z",
      "distro": "noble",
      "commit": "37e5fae7c3c16070e773d7fa514138ca7ada568f",
      "fileid": "7fdea0e5d8d1e91b7c04be8f2ce50e71e6a99dfa3f86167825208dd2f8979d1b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/26393307955"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.2.2",
      "date": "2026-05-25T09:28:13.000Z",
      "commit": "37e5fae7c3c16070e773d7fa514138ca7ada568f",
      "fileid": "1f12a038ba713d82420f17213e4689857622f0bb903326b582827bafdeac9d40",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/26393307955"
    }
  ]
}