{
  "_id": "6aca2049fe5cc25786e84fb6",
  "Package": "GenomicDistributionsData",
  "Title": "Reference data for GenomicDistributions package",
  "Version": "1.20.0",
  "Authors@R": "c(person(given = \"Michal\",\nfamily = \"Stolarczyk\",\nrole = \"aut\",\nemail = \"mjs5kd@virginia.edu\"),\nperson(\"Kristyna\", \"Kupkova\", role=c(\"aut\", \"cre\"),\nemail = \"kristynakupkova@gmail.com\"),\nperson(\"Jose\", \"Verdezoto\", role=\"aut\"),\nperson(\"John\", \"Lawson\", role=\"ctb\"),\nperson(\"Jason\", \"Smith\", role=\"ctb\"),\nperson(c(\"Nathan\", \"C.\"), \"Sheffield\", role=\"ctb\"))",
  "Description": "This package provides ready to use reference data for\nGenomicDistributions package. Raw data was obtained from\nensembldb and processed with helper functions. Data files are\navailable for the following genome assemblies: hg19, hg38, mm9\nand mm10.",
  "License": "BSD_2_clause + file LICENSE",
  "biocViews": "ExperimentHub, ExperimentData, Genome",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.1.1",
  "VignetteBuilder": "knitr",
  "BugReports": "http://github.com/databio/GenomicDistributionsData",
  "Config/pak/sysreqs": "make libbz2-dev libicu-dev liblzma-dev libpng-dev\nlibxml2-dev libssl-dev xz-utils zlib1g-dev",
  "Repository": "Bioconductor 3.23",
  "Date/Publication": "2026-04-28 12:34:38 UTC",
  "RemoteUrl": "https://github.com/bioc/GenomicDistributionsData",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "59c917c55b2171059014f2dc9438d9f1993312a2",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-10 11:15:06 UTC",
    "User": "root"
  },
  "Author": "Michal Stolarczyk [aut],\nKristyna Kupkova [aut, cre],\nJose Verdezoto [aut],\nJohn Lawson [ctb],\nJason Smith [ctb],\nNathan C. Sheffield [ctb]",
  "Maintainer": "Kristyna Kupkova <kristynakupkova@gmail.com>",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "GenomicDistributionsData_1.20.0.tar.gz",
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  "_sha256": "168c17c4d890d3c7ec4617e18a994f05b686151adfd39e217e2eee9cda600869",
  "_expires": "2027-01-18T11:23:51.000Z",
  "_created": "2026-10-10T11:15:06.000Z",
  "_published": "2026-10-10T11:23:53.492Z",
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/38047482517",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 0,
    "warning": 1,
    "note": 13
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  "_upstream": "https://github.com/bioc/GenomicDistributionsData",
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    "author": "lshep <lori.shepherd@roswellpark.org>",
    "committer": "lshep <lori.shepherd@roswellpark.org>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777379678
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  "_maintainer": {
    "name": "Kristyna Kupkova",
    "email": "kristynakupkova@gmail.com",
    "login": "kkupkova",
    "description": "Graduate student at UVA - epigenomics of chronic undernutrition / computational biology",
    "uuid": 23073484
  },
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  "_registered": true,
  "_dependencies": [
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      "package": "R",
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      "role": "Depends"
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      "package": "ExperimentHub",
      "version": ">= 1.14.0",
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      "package": "BSgenome",
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    },
    {
      "package": "GenomeInfoDb",
      "role": "Imports"
    },
    {
      "package": "GenomicFeatures",
      "role": "Imports"
    },
    {
      "package": "GenomicRanges",
      "role": "Imports"
    },
    {
      "package": "ensembldb",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
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    {
      "package": "BiocStyle",
      "role": "Suggests"
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    {
      "package": "rmarkdown",
      "role": "Suggests"
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  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
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      "week": "2025-44",
      "n": 2
    },
    {
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  "_tags": [],
  "_bioc": [
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      "branch": "devel",
      "version": "1.21.0",
      "bioc": "3.24",
      "repository": "data/experiment"
    },
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      "branch": "release",
      "version": "1.20.0",
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  ],
  "_topics": [
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    "experimentdata",
    "genome",
    "datapkg"
  ],
  "_stars": 3,
  "_contributors": [
    {
      "user": "kkupkova",
      "count": 22,
      "uuid": 23073484
    },
    {
      "user": "joseverdezoto",
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      "uuid": 24950132
    },
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    "type": "organization",
    "name": "Bioconductor",
    "followers": 476,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
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  "_devurl": "https://github.com/databio/genomicdistributionsdata",
  "_searchresults": 26,
  "_datapkg": true,
  "_rbuild": "4.6.1",
  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/GenomicDistributionsData.html",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "LICENSE"
  ],
  "_cranurl": false,
  "_exports": [
    "chromSizes_hg19",
    "chromSizes_hg38",
    "chromSizes_mm10",
    "chromSizes_mm9",
    "geneModels_hg19",
    "geneModels_hg38",
    "geneModels_mm10",
    "geneModels_mm9",
    "openSignalMatrix_hg19",
    "openSignalMatrix_hg38",
    "openSignalMatrix_mm10",
    "TSS_hg19",
    "TSS_hg38",
    "TSS_mm10",
    "TSS_mm9"
  ],
  "_help": [
    {
      "page": "dot-requireAndReturn",
      "title": "Checks to make sure a package object is installed, and if so, returns it. If the library is not installed, it issues a warning and returns NULL.",
      "topics": [
        ".requireAndReturn"
      ]
    },
    {
      "page": "buildChromSizes",
      "title": "Build chromosome sizes object",
      "topics": [
        "buildChromSizes"
      ]
    },
    {
      "page": "buildGeneModels",
      "title": "Build gene models",
      "topics": [
        "buildGeneModels"
      ]
    },
    {
      "page": "buildOpenSignalMatrix",
      "title": "Build open signal matrix",
      "topics": [
        "buildOpenSignalMatrix"
      ]
    },
    {
      "page": "buildTSS",
      "title": "Build TSS",
      "topics": [
        "buildTSS"
      ]
    },
    {
      "page": "cellTypeMetadata",
      "title": "Table the maps cell types to tissues and groups",
      "topics": [
        "cellTypeMetadata"
      ]
    },
    {
      "page": "chromSizes_hg19",
      "title": "hg19 chromosome sizes",
      "topics": [
        "chromSizes_hg19"
      ]
    },
    {
      "page": "chromSizes_hg38",
      "title": "hg38 chromosome sizes",
      "topics": [
        "chromSizes_hg38"
      ]
    },
    {
      "page": "chromSizes_mm10",
      "title": "mm10 chromosome sizes",
      "topics": [
        "chromSizes_mm10"
      ]
    },
    {
      "page": "chromSizes_mm9",
      "title": "mm9 chromosome sizes",
      "topics": [
        "chromSizes_mm9"
      ]
    },
    {
      "page": "geneModels_hg19",
      "title": "hg19 gene models",
      "topics": [
        "geneModels_hg19"
      ]
    },
    {
      "page": "geneModels_hg38",
      "title": "hg38 gene models",
      "topics": [
        "geneModels_hg38"
      ]
    },
    {
      "page": "geneModels_mm10",
      "title": "mm10 gene models",
      "topics": [
        "geneModels_mm10"
      ]
    },
    {
      "page": "geneModels_mm9",
      "title": "mm9 gene models",
      "topics": [
        "geneModels_mm9"
      ]
    },
    {
      "page": "GenomicDistributionsData",
      "title": "GenomicDIstributionsData",
      "topics": [
        "GenomicDistributionsData"
      ]
    },
    {
      "page": "loadBSgenome",
      "title": "Loads BSgenome objects from UCSC-style character vectors.",
      "topics": [
        "loadBSgenome"
      ]
    },
    {
      "page": "loadEnsDb",
      "title": "Load selected EnsDb library",
      "topics": [
        "loadEnsDb"
      ]
    },
    {
      "page": "loadTxDb",
      "title": "Load selected TxDb library",
      "topics": [
        "loadTxDb"
      ]
    },
    {
      "page": "openSignalMatrix_hg19",
      "title": "A dataset containing open chromatin regions across all cell types defined by ENCODE for Homo Sapiens hg19",
      "topics": [
        "openSignalMatrix_hg19"
      ]
    },
    {
      "page": "openSignalMatrix_hg38",
      "title": "A dataset containing open chromatin regions across all cell types defined by ENCODE for Homo sapiens hg38",
      "topics": [
        "openSignalMatrix_hg38"
      ]
    },
    {
      "page": "openSignalMatrix_mm10",
      "title": "A dataset containing open chromatin regions across all cell types defined by ENCODE for Mus musculus mm10",
      "topics": [
        "openSignalMatrix_mm10"
      ]
    },
    {
      "page": "TSS_hg19",
      "title": "hg19 TSS locations",
      "topics": [
        "TSS_hg19"
      ]
    },
    {
      "page": "TSS_hg38",
      "title": "hg38 TSS locations",
      "topics": [
        "TSS_hg38"
      ]
    },
    {
      "page": "TSS_mm10",
      "title": "mm10 TSS locations",
      "topics": [
        "TSS_mm10"
      ]
    },
    {
      "page": "TSS_mm9",
      "title": "mm9 TSS locations",
      "topics": [
        "TSS_mm9"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/GenomicDistributionsData/raw/RELEASE_3_23/README.md",
  "_rundeps": [
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    "AnnotationDbi",
    "AnnotationFilter",
    "AnnotationHub",
    "askpass",
    "BH",
    "Biobase",
    "BiocBaseUtils",
    "BiocFileCache",
    "BiocGenerics",
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    "ensembldb",
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    "fastmap",
    "filelock",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
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    "GenomicAlignments",
    "GenomicFeatures",
    "GenomicRanges",
    "glue",
    "httr",
    "httr2",
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    "jsonlite",
    "KEGGREST",
    "lambda.r",
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    "snow",
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    "stringi",
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    "sys",
    "tibble",
    "tidyr",
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    "utf8",
    "vctrs",
    "withr",
    "XML",
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  ],
  "_vignettes": [
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      "source": "intro.Rmd",
      "filename": "intro.html",
      "title": "Getting started with GenomicDistributionsData",
      "author": "Jose Verdezoto",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction to GenomicDistributionsData",
        "Load GenomicDistributionsData and ExperimentHub",
        "Create an ExperimentHub object and inspect the data",
        "Chromosome Sizes",
        "Transcription Start Sites (TSS)",
        "Gene Models",
        "Open Signal Matrices",
        "Access data using file named functions"
      ],
      "created": "2020-07-08 16:01:08",
      "modified": "2020-11-16 23:52:30",
      "commits": 3
    }
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}