{
  "_id": "6a1e99a11d7bb097a0a6e006",
  "Package": "BasicSTARRseq",
  "Type": "Package",
  "Title": "Basic peak calling on STARR-seq data",
  "Version": "1.41.0",
  "Date": "2025-07-24",
  "Author": "Annika Buerger",
  "Maintainer": "Annika Buerger <annika.buerger@ukmuenster.de>",
  "Description": "Basic peak calling on STARR-seq data based on a method\nintroduced in \"Genome-Wide Quantitative Enhancer Activity Maps\nIdentified by STARR-seq\" Arnold et al. Science. 2013 Mar\n1;339(6123):1074-7. doi: 10.1126/science. 1232542. Epub 2013\nJan 17.",
  "License": "LGPL-3",
  "VignetteBuilder": "knitr",
  "biocViews": "PeakDetection, GeneRegulation, FunctionalPrediction,\nFunctionalGenomics, Coverage",
  "NeedsCompilation": "no",
  "Config/pak/sysreqs": "libbz2-dev liblzma-dev xz-utils zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:42:35 UTC",
  "RemoteUrl": "https://github.com/bioc/BasicSTARRseq",
  "RemoteRef": "HEAD",
  "RemoteSha": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
  "Packaged": {
    "Date": "2026-06-02 08:45:11 UTC",
    "User": "root"
  },
  "MD5sum": "8f9efd1b789acf9e2dcc029845245ed8",
  "_user": "bioc",
  "_type": "src",
  "_file": "BasicSTARRseq_1.41.0.tar.gz",
  "_fileid": "2ddfc8a44e637101cb2df6e61a6fe8fe51d76577098a95ea3fc232be8525478b",
  "_filesize": 497327,
  "_sha256": "2ddfc8a44e637101cb2df6e61a6fe8fe51d76577098a95ea3fc232be8525478b",
  "_created": "2026-06-02T08:45:11.000Z",
  "_published": "2026-06-02T08:51:45.593Z",
  "_jobs": [
    {
      "job": 79033210255,
      "time": 168,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7353111122"
    },
    {
      "job": 79033210220,
      "time": 269,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7353148834"
    },
    {
      "job": 79033210257,
      "time": 320,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7353167785"
    },
    {
      "job": 79033210297,
      "time": 182,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7353116516"
    },
    {
      "job": 79033210245,
      "time": 167,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7353110684"
    },
    {
      "job": 79032554991,
      "time": 231,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7353052481"
    },
    {
      "job": 79033210247,
      "time": 121,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7353095257"
    },
    {
      "job": 79033210291,
      "time": 221,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7353130443"
    },
    {
      "job": 79033210259,
      "time": 187,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7353117457"
    },
    {
      "job": 79033210326,
      "time": 225,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7353132181"
    }
  ],
  "_bioccheck": {
    "error": 1,
    "warning": 1,
    "note": 10
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/BasicSTARRseq",
  "_commit": {
    "id": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
    "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": 1777380155
  },
  "_maintainer": {
    "name": "Annika Buerger",
    "email": "annika.buerger@ukmuenster.de",
    "login": "arbuerger",
    "description": "",
    "uuid": 30867644
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "GenomicRanges",
      "role": "Depends"
    },
    {
      "package": "GenomicAlignments",
      "role": "Depends"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "IRanges",
      "role": "Imports"
    },
    {
      "package": "Seqinfo",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-30",
      "n": 1
    },
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.41.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.40.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "peakdetection",
    "generegulation",
    "functionalprediction",
    "functionalgenomics",
    "coverage"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 408,
    "source": "https://www.bioconductor.org/packages/stats/bioc/BasicSTARRseq"
  },
  "_mentions": 1,
  "_searchresults": 1,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/BasicSTARRseq.html",
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "manual.pdf"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "control",
    "control<-",
    "getPeaks",
    "sample",
    "sample<-",
    "STARRseqData"
  ],
  "_help": [
    {
      "page": "getPeaks",
      "title": "Peak calling on STARR-seq data",
      "topics": [
        "getPeaks",
        "getPeaks,STARRseqData-method"
      ]
    },
    {
      "page": "STARRseqData-class",
      "title": "Class '\"STARRseqData\"'",
      "topics": [
        "control",
        "control,STARRseqData-method",
        "control<-",
        "control<-,STARRseqData,GRanges-method",
        "sample",
        "sample,STARRseqData-method",
        "sample<-",
        "sample<-,STARRseqData,GRanges-method",
        "STARRseqData",
        "STARRseqData,character,character,logical-method",
        "STARRseqData,GRanges,GRanges,ANY-method",
        "STARRseqData,GRanges,GRanges-method",
        "STARRseqData-class"
      ]
    }
  ],
  "_rundeps": [
    "abind",
    "BH",
    "Biobase",
    "BiocGenerics",
    "BiocParallel",
    "Biostrings",
    "bitops",
    "cigarillo",
    "codetools",
    "cpp11",
    "crayon",
    "DelayedArray",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomicAlignments",
    "GenomicRanges",
    "IRanges",
    "lambda.r",
    "lattice",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "Rhtslib",
    "Rsamtools",
    "S4Arrays",
    "S4Vectors",
    "Seqinfo",
    "snow",
    "SparseArray",
    "SummarizedExperiment",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "BasicSTARRseq.rnw",
      "filename": "BasicSTARRseq.pdf",
      "title": "A R/Bioconductor package for basic peak calling on STARR-seq data",
      "engine": "utils::Sweave",
      "headings": [],
      "created": "2016-02-09 16:40:36",
      "modified": "2016-02-09 16:40:36",
      "commits": 1
    }
  ],
  "_score": 3.4771212547196626,
  "_indexed": true,
  "_nocasepkg": "basicstarrseq",
  "_universes": [
    "bioc",
    "arbuerger"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.41.0",
      "date": "2026-06-02T08:48:11.000Z",
      "distro": "noble",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "1deb12a911be3089b20770e47691c29a912dcb14d08eded04af2001c0258029a",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.41.0",
      "date": "2026-06-02T08:48:46.000Z",
      "distro": "noble",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "f32b1d2fa55582539ff3e6afaa117baa22fce1c79d96785c6d5062b101af959b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.41.0",
      "date": "2026-06-02T08:47:20.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "4cdb34aac3ac1ac468b5a1bc901452df0b0c8e521bb7f68026bb3402eb76ae77",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.41.0",
      "date": "2026-06-02T08:47:09.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "cff71ab776618eedff0fc350825a39c2a80dc33d5f37c5336662766058a758da",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.41.0",
      "date": "2026-06-02T08:47:48.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "8f9f3ce5ff9ae942a3ae6bb74069ae51035992ef04a1c6a228bc87d2580d29ac",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.41.0",
      "date": "2026-06-02T08:47:08.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "6a970a8b3561394552d1c58120ee0666a6fb5ca1beeb048fafdcb6bf17b6008e",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.41.0",
      "date": "2026-06-02T08:46:51.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "f73856a4e4403e6f6e8eae7129ebbaa61e6c98452cc421c094cd59c75beb2ac6",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.41.0",
      "date": "2026-06-02T08:47:10.000Z",
      "commit": "3d6b5dfc97981b06fcf08251e5eb74608db86e12",
      "fileid": "ece21731cc5a6bb4d7c657ecd87555eb3ecf76966a2c5a0234d15c4133b2934b",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26808633462"
    }
  ]
}