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  "Title": "TCGA utility functions for data management",
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  "Date": "2026-05-15",
  "Description": "A suite of helper functions for checking and manipulating\nTCGA data including data obtained from the curatedTCGAData\nexperiment package. These functions aim to simplify and make\nworking with TCGA data more manageable. Exported functions\ninclude those that import data from flat files into\nBioconductor objects, convert row annotations, and identifier\ntranslation via the GDC API.",
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  "Repository": "https://waldronlab.r-universe.dev",
  "Date/Publication": "2026-05-25 02:45:00 UTC",
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        "TCGAutils"
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      "page": "builds",
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        "uniformBuilds"
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      "topics": [
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        "sampleTables",
        "TCGAsplitAssays"
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      "title": "Find the file names used in RTCGAToolbox",
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      "title": "Translate study identifiers from barcode to UUID and vice versa",
      "topics": [
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        "filenameToBarcode",
        "ID-translation",
        "UUIDhistory",
        "UUIDtoBarcode",
        "UUIDtoUUID"
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        "mirToRanges",
        "qreduceTCGA",
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      "source": "TCGAutils.Rmd",
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      "title": "TCGAutils: Helper functions for working with TCGA datasets",
      "author": "Marcel Ramos & Levi Waldron",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Installation",
        "curatedTCGAData utility functions",
        "obtaining TCGA as MultiAssayExperiment objects from curatedTCGAData",
        "sampleTables: what sample types are present in the data?",
        "TCGAsplitAssays: separate the data from different tissue types",
        "getSubtypeMap: manually curated molecular subtypes",
        "getClinicalNames: key \"level 4\" clinical &  pathological data",
        "Converting Assays to SummarizedExperiment",
        "CpGtoRanges",
        "qreduceTCGA",
        "symbolsToRanges",
        "Importing TCGA text data files to Bioconductor classes",
        "Work around for long file names on Windows",
        "makeGRangesListFromCopyNumber",
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        "mergeColData: expanding the colData of a MultiAssayExperiment",
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        "sampleTypes",
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