{
  "_id": "6a2e8c533efcd9bda431ca2f",
  "Package": "tRNAscanImport",
  "Title": "Importing a tRNAscan-SE result file as GRanges object",
  "Version": "1.32.0",
  "Date": "2025-07-23",
  "Authors@R": "person(\"Felix G.M.\", \n\"Ernst\",\nemail = \"felix.gm.ernst@outlook.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-5064-0928\"))",
  "Description": "The package imports the result of tRNAscan-SE as a GRanges\nobject.",
  "License": "GPL-3 + file LICENSE",
  "Encoding": "UTF-8",
  "Collate": "'tRNAscanImport.R' 'AllGenerics.R' 'tRNAscanImport-checks.R'\n'tRNAscanImport-genome.R' 'tRNAscanImport-import.R' 'utils.R'",
  "RoxygenNote": "7.1.1",
  "VignetteBuilder": "knitr",
  "biocViews": "Software, DataImport, WorkflowStep, Preprocessing,\nVisualization",
  "BugReports": "https://github.com/FelixErnst/tRNAscanImport/issues",
  "URL": "https://github.com/FelixErnst/tRNAscanImport",
  "Config/pak/sysreqs": "make libbz2-dev libicu-dev liblzma-dev libxml2-dev\nlibssl-dev xz-utils zlib1g-dev",
  "Repository": "https://bioc-release.r-universe.dev",
  "Date/Publication": "2026-04-28 12:47:24 UTC",
  "RemoteUrl": "https://github.com/bioc/tRNAscanImport",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-14 11:03:17 UTC",
    "User": "root"
  },
  "Author": "Felix G.M. Ernst [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-5064-0928>)",
  "Maintainer": "Felix G.M. Ernst <felix.gm.ernst@outlook.com>",
  "MD5sum": "a5ef7daa35472ce2387279a05a162b3e",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "tRNAscanImport_1.32.0.tar.gz",
  "_fileid": "57276c4c97b39ed8057ba8214a65b4b4846a9515a8fc782af1d32ccd8d0650d1",
  "_filesize": 635925,
  "_sha256": "57276c4c97b39ed8057ba8214a65b4b4846a9515a8fc782af1d32ccd8d0650d1",
  "_created": "2026-06-14T11:03:17.000Z",
  "_published": "2026-06-14T11:11:15.369Z",
  "_jobs": [
    {
      "job": 81272277919,
      "time": 210,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7620370867"
    },
    {
      "job": 81272277928,
      "time": 401,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7620395739"
    },
    {
      "job": 81272277934,
      "time": 393,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620394642"
    },
    {
      "job": 81272277940,
      "time": 244,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7620375409"
    },
    {
      "job": 81272277936,
      "time": 252,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620376366"
    },
    {
      "job": 81271895308,
      "time": 341,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620342302"
    },
    {
      "job": 81272277918,
      "time": 175,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620366377"
    },
    {
      "job": 81272277953,
      "time": 298,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7620382951"
    },
    {
      "job": 81272277962,
      "time": 345,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7620388537"
    },
    {
      "job": 81272277930,
      "time": 329,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620386599"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 9
  },
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/tRNAscanImport",
  "_commit": {
    "id": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
    "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": 1777380444
  },
  "_maintainer": {
    "name": "Felix G.M. Ernst",
    "email": "felix.gm.ernst@outlook.com",
    "login": "felixernst",
    "description": "",
    "uuid": 17824332,
    "orcid": "0000-0001-5064-0928"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5",
      "role": "Depends"
    },
    {
      "package": "GenomicRanges",
      "role": "Depends"
    },
    {
      "package": "tRNA",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "stringr",
      "role": "Imports"
    },
    {
      "package": "BiocGenerics",
      "role": "Imports"
    },
    {
      "package": "Biostrings",
      "role": "Imports"
    },
    {
      "package": "Structstrings",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "IRanges",
      "role": "Imports"
    },
    {
      "package": "XVector",
      "role": "Imports"
    },
    {
      "package": "Seqinfo",
      "role": "Imports"
    },
    {
      "package": "rtracklayer",
      "role": "Imports"
    },
    {
      "package": "BSgenome",
      "role": "Imports"
    },
    {
      "package": "Rsamtools",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    },
    {
      "package": "BSgenome.Scerevisiae.UCSC.sacCer3",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-39",
      "n": 2
    },
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.33.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.32.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "software",
    "dataimport",
    "workflowstep",
    "preprocessing",
    "visualization",
    "bioconductor",
    "sequences",
    "structures",
    "trna",
    "trnascan",
    "trnascan-se"
  ],
  "_stars": 2,
  "_contributors": [
    {
      "user": "felixernst",
      "count": 147,
      "uuid": 17824332
    },
    {
      "user": "nturaga",
      "count": 14,
      "uuid": 2746443
    },
    {
      "user": "jwokaty",
      "count": 12,
      "uuid": 1744257
    },
    {
      "user": "vobencha",
      "count": 2,
      "uuid": 2466173
    },
    {
      "user": "hpages",
      "count": 1,
      "uuid": 8810451
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 440,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 338,
    "source": "https://www.bioconductor.org/packages/stats/bioc/tRNAscanImport"
  },
  "_devurl": "https://github.com/felixernst/trnascanimport",
  "_searchresults": 4,
  "_rbuild": "4.6.0",
  "_assets": [
    "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",
    "extra/tRNAscanImport.html",
    "LICENSE",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/felixernst/trnascanimport",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "get.tRNAprecursor",
    "import.tRNAscanAsGRanges",
    "istRNAscanGRanges",
    "tRNAscan2GFF",
    "tRNAscanID"
  ],
  "_help": [
    {
      "page": "get.tRNAprecursor",
      "title": "Get tRNA precursor sequences",
      "topics": [
        "get.tRNAprecursor"
      ]
    },
    {
      "page": "import.tRNAscanAsGRanges",
      "title": "Importing a tRNAscan output file as a GRanges object",
      "topics": [
        "import.tRNAscanAsGRanges",
        "tRNAscan2GFF",
        "tRNAscanID"
      ]
    },
    {
      "page": "istRNAscanGRanges",
      "title": "tRNAscan compatibility check",
      "topics": [
        "istRNAscanGRanges",
        "istRNAscanGRanges,GRanges-method"
      ]
    },
    {
      "page": "tRNAscanImport",
      "title": "tRNAscanImport: Importing tRNAscan-SE output as GRanges",
      "topics": [
        "tRNAscanImport"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/tRNAscanImport/raw/RELEASE_3_23/README.md",
  "_rundeps": [
    "abind",
    "askpass",
    "BH",
    "Biobase",
    "BiocGenerics",
    "BiocIO",
    "BiocParallel",
    "Biostrings",
    "bitops",
    "BSgenome",
    "cigarillo",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "curl",
    "DelayedArray",
    "farver",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomicAlignments",
    "GenomicRanges",
    "ggplot2",
    "glue",
    "gtable",
    "httr",
    "IRanges",
    "isoband",
    "jsonlite",
    "labeling",
    "lambda.r",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "mime",
    "Modstrings",
    "openssl",
    "R6",
    "RColorBrewer",
    "RCurl",
    "restfulr",
    "Rhtslib",
    "rjson",
    "rlang",
    "Rsamtools",
    "rtracklayer",
    "S4Arrays",
    "S4Vectors",
    "S7",
    "scales",
    "Seqinfo",
    "snow",
    "SparseArray",
    "stringi",
    "stringr",
    "Structstrings",
    "SummarizedExperiment",
    "sys",
    "tRNA",
    "vctrs",
    "viridisLite",
    "withr",
    "XML",
    "XVector",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "tRNAscanImport.Rmd",
      "filename": "tRNAscanImport.html",
      "title": "Importing tRNAscan-SE output as GRanges",
      "author": "Felix G.M. Ernst",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Getting started",
        "Importing as GRanges",
        "Visualization",
        "Getting tRNA precursor sequences",
        "Further reading",
        "Session info",
        "References"
      ],
      "created": "2018-02-10 13:03:22",
      "modified": "2020-04-10 09:37:24",
      "commits": 23
    }
  ],
  "_score": 5.079181246047625,
  "_indexed": false,
  "_nocasepkg": "trnascanimport",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/tRNAscanImport",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.32.0",
      "date": "2026-06-14T11:08:07.000Z",
      "distro": "noble",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "c3e341ae8e4dd2be68498d759c25f00e83b00cea4f317c28d9bc311799661110",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.32.0",
      "date": "2026-06-14T11:07:08.000Z",
      "distro": "noble",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "d5bc70ca0031446b7fb1afebea1d96103b5dd2caf52f95b412e5302f60324b33",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.32.0",
      "date": "2026-06-14T11:05:49.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "ea56e2d8465c82126d8584b0f07bc565b9f7cdade1a131a2b19fe7899a9bc44d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.32.0",
      "date": "2026-06-14T11:05:56.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "35d040eeb7c1a9165f6b0fd13b2c3b9b0930348b46affca9aebf681f7e62ea6c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.32.0",
      "date": "2026-06-14T11:06:50.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "1f3d553ea4ef3da29850ef8f592d1fcd2f7758c5b7f1475af85114ec3f75ce48",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.32.0",
      "date": "2026-06-14T11:05:54.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "6a7537c0afaac03c8078c9a7d66b1ec0647d8d64f51e5efad3fd426f74167fe6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.32.0",
      "date": "2026-06-14T11:05:49.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "0bcaf002015652143ad51b7d61a12ed1a176b27d98785cd84e80fb9dce8cd6c4",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.32.0",
      "date": "2026-06-14T11:05:38.000Z",
      "commit": "a29cf01da27614ea4d3763fcec2b6a9fc43751d5",
      "fileid": "2d51e4db0fddd6928eb638460e8f04393f67b3acbfbbd5f6bbe91f1d968a405c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27496658454"
    }
  ]
}