Package: curatedTCGAData 1.27.0

Marcel Ramos

curatedTCGAData: Curated Data from The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects

This package provides publicly available data from The Cancer Genome Atlas (TCGA) as MultiAssayExperiment objects. MultiAssayExperiment integrates multiple assays (e.g., RNA-seq, copy number, mutation, microRNA, protein, and others) with clinical / pathological data. It also links assay barcodes with patient identifiers, enabling harmonized subsetting of rows (features) and columns (patients / samples) across the entire multi-'omics experiment.

Authors:Marcel Ramos [aut, cre], Levi Waldron [ctb], Lucas Schiffer [ctb], Ludwig Geistlinger [ctb], Valerie Obenchain [ctb], Martin Morgan [ctb]

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NEWS

Peer review:

Bug tracker:https://github.com/waldronlab/curatedtcgadata/issues

On CRAN:

homo_sapiens_datareproducibleresearchcancerdataexperimenthubbioconductor-package

1 exports 42 stars 3.08 score 76 dependencies 1 dependents 157 scripts

Last updated 5 months agofrom:74c1385fa3. Checks:OK: 1 WARNING: 6. Indexed: yes.

Exports:curatedTCGAData

Dependencies:abindAnnotationDbiAnnotationHubaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobcachemclicpp11crayoncurlDBIdbplyrDelayedArraydplyrExperimentHubfansifastmapfilelockgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesglueHDF5ArrayhttrIRangesjsonliteKEGGRESTlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeMultiAssayExperimentopensslpillarpkgconfigplogrpngpurrrR6rappdirsrhdf5rhdf5filtersRhdf5librlangRSQLiteS4ArraysS4VectorsSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXVectoryamlzlibbioc