{
  "_id": "6a196ecbacfb0bcc41debf6e",
  "Package": "BiocIO",
  "Title": "Standard Input and Output for Bioconductor Packages",
  "Version": "1.23.3",
  "Authors@R": "c(\nperson(\"Martin\", \"Morgan\", role = \"aut\"),\nperson(\"Michael\", \"Lawrence\", role = \"aut\"),\nperson(\"Daniel\", \"Van Twisk\", role = \"aut\"),\nperson(\"Marcel\", \"Ramos\", , \"marcel.ramos@sph.cuny.edu\",\n\"cre\", c(ORCID = \"0000-0002-3242-0582\")\n))",
  "Description": "The `BiocIO` package contains high-level abstract classes\nand generics used by developers to build IO funcionality within\nthe Bioconductor suite of packages. Implements `import()` and\n`export()` standard generics for importing and exporting\nbiological data formats. `import()` supports whole-file as well\nas chunk-wise iterative import. The `import()` interface\noptionally provides a standard mechanism for 'lazy' access via\n`filter()` (on row or element-like components of the file\nresource), `select()` (on column-like components of the file\nresource) and `collect()`. The `import()` interface optionally\nprovides transparent access to remote (e.g. via https) as well\nas local access. Developers can register a file extension,\ne.g., `.loom` for dispatch from character-based URIs to\nspecific `import()` / `export()` methods based on classes\nrepresenting file types, e.g., `LoomFile()`.",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "Collate": "'BiocFile.R' 'import_export.R' 'compression.R' 'utils.R'",
  "VignetteBuilder": "knitr",
  "biocViews": "Annotation,DataImport",
  "BugReports": "https://github.com/Bioconductor/BiocIO/issues",
  "Date": "2026-04-28",
  "Repository": "https://link-ny.r-universe.dev",
  "Date/Publication": "2026-04-28 22:14:47 UTC",
  "RemoteUrl": "https://github.com/Bioconductor/BiocIO",
  "RemoteRef": "HEAD",
  "RemoteSha": "145536de8f8d3c75c341455abc4e83191be6cc04",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-29 09:02:03 UTC",
    "User": "root"
  },
  "Author": "Martin Morgan [aut],\nMichael Lawrence [aut],\nDaniel Van Twisk [aut],\nMarcel Ramos [cre] (ORCID: <https://orcid.org/0000-0002-3242-0582>)",
  "Maintainer": "Marcel Ramos <marcel.ramos@sph.cuny.edu>",
  "MD5sum": "9fd686d4d857686d791ede82734dff1d",
  "_user": "link-ny",
  "_type": "src",
  "_file": "BiocIO_1.23.3.tar.gz",
  "_fileid": "21ae55ba2932b03897c6099560dbde5e5fb4a0d876122267bb3153d45d5465d1",
  "_filesize": 119593,
  "_sha256": "21ae55ba2932b03897c6099560dbde5e5fb4a0d876122267bb3153d45d5465d1",
  "_created": "2026-05-29T09:02:03.000Z",
  "_published": "2026-05-29T10:47:39.401Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 78470593400,
      "time": 124,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7287069853"
    },
    {
      "job": 78470593374,
      "time": 131,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7287072411"
    },
    {
      "job": 78470593388,
      "time": 77,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7288884587"
    },
    {
      "job": 78470593380,
      "time": 103,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7288894591"
    },
    {
      "job": 78470145577,
      "time": 170,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7287031707"
    },
    {
      "job": 78470593652,
      "time": 102,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7287063103"
    },
    {
      "job": 78470593361,
      "time": 88,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7287059204"
    },
    {
      "job": 78470593359,
      "time": 132,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7287072432"
    },
    {
      "job": 78470593467,
      "time": 85,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7287057880"
    }
  ],
  "_buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/Bioconductor/BiocIO",
  "_commit": {
    "id": "145536de8f8d3c75c341455abc4e83191be6cc04",
    "author": "LiNk-NY <marcel.ramos@sph.cuny.edu>",
    "committer": "LiNk-NY <marcel.ramos@sph.cuny.edu>",
    "message": "version bump 1.23.3\n",
    "time": 1777414487
  },
  "_maintainer": {
    "name": "Marcel Ramos",
    "email": "marcel.ramos@sph.cuny.edu",
    "login": "link-ny",
    "bluesky": "@mramos148.bsky.social",
    "linkedin": "in/mramos148",
    "orcid": "0000-0002-3242-0582",
    "twitter": "@M2RuseR",
    "description": "Sr. Data Scientist @ CUNY School of Public Health: Waldron Lab & Bioconductor Core Team Member /  \nR 📦 dev ",
    "uuid": 4392950
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.3.0",
      "role": "Depends"
    },
    {
      "package": "BiocBaseUtils",
      "role": "Imports"
    },
    {
      "package": "BiocGenerics",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "tools",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    }
  ],
  "_owner": "bioconductor",
  "_selfowned": true,
  "_usedby": 515,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 13
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.23.3",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.22.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "annotation",
    "dataimport",
    "bioconductor-package",
    "core-package"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "dvantwisk",
      "count": 24,
      "uuid": 10927671
    },
    {
      "user": "link-ny",
      "count": 17,
      "uuid": 4392950
    },
    {
      "user": "jwokaty",
      "count": 16,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 8,
      "uuid": 2746443
    },
    {
      "user": "kayla-morrell",
      "count": 4,
      "uuid": 32339524
    },
    {
      "user": "mtmorgan",
      "count": 3,
      "uuid": 118552
    },
    {
      "user": "petehaitch",
      "count": 1,
      "uuid": 1049741
    }
  ],
  "_userbio": {
    "uuid": 4392950,
    "type": "user",
    "name": "Marcel Ramos Pérez",
    "description": "Sr. Data Scientist @ CUNY School of Public Health: Waldron Lab & Bioconductor Core Team Member /  \r\nR :package: dev "
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/BiocIO"
  },
  "_devurl": "https://github.com/bioconductor/biocio",
  "_searchresults": 36,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/BiocIO.html",
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/bioconductor/biocio",
  "_realowner": "bioc",
  "_cranurl": true,
  "_exports": [
    "BiocFileList",
    "decompress",
    "export",
    "FileForFormat",
    "fileFormat",
    "import",
    "path",
    "resource",
    "resource<-",
    "show"
  ],
  "_help": [
    {
      "page": "BiocFile-class",
      "title": "BiocFile class objects",
      "topics": [
        "as.character,BiocFile-method",
        "BiocFile",
        "BiocFile-class",
        "BiocFileList",
        "BiocFileList-class",
        "FileForFormat",
        "fileFormat",
        "fileFormat,BiocFile-method",
        "fileFormat,character-method",
        "path",
        "path,BiocFile-method",
        "resource",
        "resource,BiocFile-method",
        "resource<-",
        "resource<-,BiocFile,character_OR_connection-method",
        "show,BiocFile-method"
      ]
    },
    {
      "page": "compression",
      "title": "File compression",
      "topics": [
        "compress",
        "CompressedFile-class",
        "compression",
        "decompress",
        "decompress,ANY-method",
        "decompress,character-method",
        "decompress,CompressedFile-method",
        "decompress,GZFile-method",
        "fileFormat,CompressedFile-method"
      ]
    },
    {
      "page": "IO",
      "title": "Import and export",
      "topics": [
        "export",
        "export,ANY,character,character-method",
        "export,ANY,character,missing-method",
        "export,ANY,CompressedFile,missing-method",
        "export,ANY,connection,character-method",
        "export,ANY,connection,missing-method",
        "export,ANY,missing,character-method",
        "import",
        "import,character,character,ANY-method",
        "import,character,missing,ANY-method",
        "import,CompressedFile,missing,ANY-method",
        "import,connection,character,ANY-method",
        "import,connection,missing,ANY-method",
        "import,missing,ANY,character-method",
        "IO"
      ]
    }
  ],
  "_readme": "https://github.com/Bioconductor/BiocIO/raw/HEAD/README.md",
  "_rundeps": [
    "BiocBaseUtils",
    "BiocGenerics",
    "generics",
    "S4Vectors"
  ],
  "_vignettes": [
    {
      "source": "BiocIO.Rmd",
      "filename": "BiocIO.html",
      "title": "An Overview of the BiocIO package",
      "author": "Daniel Van Twisk, Martin Morgan",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Import and Export",
        "The BiocFile Class",
        "CompressedFile",
        "For developers",
        "Converting existing \"File\" Classes",
        "Creating classes and methods that extend BiocFile's class and methods",
        "Session info"
      ],
      "created": "2020-06-01 16:28:57",
      "modified": "2026-04-28 21:24:48",
      "commits": 14
    }
  ],
  "_score": 8.523382234911784,
  "_indexed": false,
  "_nocasepkg": "biocio",
  "_universes": [
    "link-ny"
  ],
  "_indexurl": "https://bioc.r-universe.dev/BiocIO",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.23.3",
      "date": "2026-05-29T09:04:01.000Z",
      "distro": "noble",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "261c878d9549361cfe139892db7318f3d5ecfe2dcd0768028f2278e37bfc52b8",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.23.3",
      "date": "2026-05-29T09:04:08.000Z",
      "distro": "noble",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "5e4649a8226f6a6cb5d60ad490863ce3f3fb869759eece94439fa459c105899f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.23.3",
      "date": "2026-05-29T10:46:36.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "f1cb0fa7927c26e1bba468112f175aefbde2e139cfb0c3c76a5bfa21c7ebf93b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.23.3",
      "date": "2026-05-29T10:47:03.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "69ae146c0b32ac7417371986b352cc6cde56dd6dbe98b2bb79c7aa96b4153f4f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.23.3",
      "date": "2026-05-29T09:04:06.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "219f37cd4a5e1afac57828a7cfe0c2e1a92769ceaefbe0df8f39a10597760317",
      "status": "success",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.23.3",
      "date": "2026-05-29T09:03:21.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "f35f834c0c7d47940df77f930f8c5151ff74fa71eaceefc28f842b73b20d0046",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.23.3",
      "date": "2026-05-29T09:04:03.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "1e4265e2d76a6acd8f4450feabe0fa0d50f0aac96f8ad8c63ad2f1c67d694ca5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.23.3",
      "date": "2026-05-29T09:03:17.000Z",
      "commit": "145536de8f8d3c75c341455abc4e83191be6cc04",
      "fileid": "9d611bcb5b704c0459bd82584a5cb54892f4538467c4f6e47be3fffcc43465e0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/link-ny/actions/runs/26628213348"
    }
  ]
}