{
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  "Package": "PlantTxDbHub",
  "Title": "Transcript Database Hub for Plant Genomes",
  "Version": "0.99.6",
  "Authors@R": "c(\nperson(\"Dwijesh Chandra\", \"Mishra\", role = \"aut\",\nemail = \"dwij.mishra@gmail.com\",\ncomment = c(ORCID = \"0000-0002-3327-6156\")),\nperson(\"Kabilan\", \"S\", role = c(\"aut\",\"cre\"),\nemail = \"kabilan151414@gmail.com\",\ncomment = c(ORCID = \"0009-0002-9422-0938\")),\nperson(\"ICAR-IARI\", role = \"fnd\", email = \"info@iari.res.in\")\n)",
  "Description": "Provides TxDb (transcript database) annotations for plant\nspecies. The SQLite files are hosted on Zenodo (or other\npermanent URLs) and are downloaded on demand via the\n`downloadPlantTxDbs()` function. The list of available species\nand their download URLs is maintained in a curated CSV file\n(inst/extdata/metadata.csv), allowing users and contributors to\neasily add new databases without modifying R code.",
  "Encoding": "UTF-8",
  "VignetteBuilder": "knitr",
  "License": "Artistic-2.0",
  "biocViews": "AnnotationData, TxDb, Arabidopsis_thaliana, Oryza_sativa,\nGlycine_max, SequenceAnnotation",
  "URL": "https://github.com/kabilanbio/PlantTxDbHub",
  "BugReports": "https://github.com/kabilanbio/PlantTxDbHub/issues",
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  "Repository": "https://biocstaging.r-universe.dev",
  "Date/Publication": "2026-07-29 09:46:08 UTC",
  "RemoteUrl": "https://github.com/BiocStaging/PlantTxDbHub",
  "RemoteRef": "HEAD",
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  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
  },
  "Author": "Dwijesh Chandra Mishra [aut] (ORCID:\n<https://orcid.org/0000-0002-3327-6156>),\nKabilan S [aut, cre] (ORCID: <https://orcid.org/0009-0002-9422-0938>),\nICAR-IARI [fnd]",
  "Maintainer": "Kabilan S <kabilan151414@gmail.com>",
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  "_expires": "2027-01-05T11:01:57.000Z",
  "_created": "2026-09-27T10:58:08.000Z",
  "_published": "2026-09-27T11:01:59.053Z",
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 5
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  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/biocstaging/actions/runs/36313942957",
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    "message": "Merge BiocStaging devel\n",
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    "name": "Kabilan S",
    "email": "kabilan151414@gmail.com",
    "login": "kabilanbio",
    "orcid": "0009-0002-9422-0938",
    "description": "Ph.D. Bioinformatics",
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    {
      "package": "GenomeInfoDb",
      "role": "Suggests"
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  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
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      "week": "2026-24",
      "n": 6
    },
    {
      "week": "2026-25",
      "n": 6
    },
    {
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  "_tags": [],
  "_topics": [
    "annotationdata",
    "txdb",
    "arabidopsis_thaliana",
    "oryza_sativa",
    "glycine_max",
    "sequenceannotation"
  ],
  "_stars": 0,
  "_contributors": [
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      "count": 36,
      "uuid": 102218059
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    "type": "organization",
    "name": "BiocStaging",
    "followers": 2
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/PlantTxDbHub"
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  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/PlantTxDbHub.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_cranurl": false,
  "_exports": [
    "downloadPlantTxDbs",
    "getTxDbPath",
    "getTxDbProvenance",
    "listPlantTxDbSpecies"
  ],
  "_help": [
    {
      "page": "PlantTxDbHub-package",
      "title": "PlantTxDbHub: TxDb databases for plants",
      "topics": [
        "PlantTxDbHub-package",
        "PlantTxDbHub"
      ]
    },
    {
      "page": "downloadPlantTxDbs",
      "title": "Download plant TxDb SQLite files from Zenodo (or other sources)",
      "topics": [
        "downloadPlantTxDbs"
      ]
    },
    {
      "page": "getTxDbPath",
      "title": "Get the local path to a cached TxDb SQLite file",
      "topics": [
        "getTxDbPath"
      ]
    },
    {
      "page": "getTxDbProvenance",
      "title": "Show data provider and source information for a species",
      "topics": [
        "getTxDbProvenance"
      ]
    },
    {
      "page": "listPlantTxDbSpecies",
      "title": "List available plant TxDb species",
      "topics": [
        "listPlantTxDbSpecies"
      ]
    }
  ],
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      "source": "PlantTxDbHub.Rmd",
      "filename": "PlantTxDbHub.html",
      "title": "Local Analysis of Plant Genomes with PlantTxDbHub",
      "author": "Kabilan S",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Installation",
        "Install from Bioconductor",
        "Install the development version from GitHub",
        "Introduction",
        "Finding available species",
        "Downloading the databases",
        "Loading a TxDb (Arabidopsis example)",
        "Available columns and keys",
        "Retrieve all genes",
        "Retrieve all transcripts",
        "Retrieve all exons",
        "Filter by gene ID",
        "Retrieving transcript types",
        "Working with chromosome names",
        "Soybean (Glycine max) example",
        "Rice (Oryza sativa) example",
        "Contributing new species",
        "Data sources and licensing",
        "Session information"
      ],
      "created": "2026-06-09 10:20:58",
      "modified": "2026-07-29 09:46:03",
      "commits": 9
    }
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