Man pages for waldronlab/BiocInterfaces
TCGA utility functions for data management

buildsUtilities for working with build numbers
clinicalNamesClinical dataset names in TCGA
curatedTCGAData-helpersHelper functions for managing MultiAssayExperiment from...
diseaseCodesTCGA Cancer Disease Codes Table
findGRangesColsObtain minimum necessary names for the creation of a...
generateMapCreate a sampleMap from an experiment list and phenoData...
getFileNamesFind the file names used in RTCGAToolbox
ID-translationTranslate study identifiers from barcode to UUID and vice...
imputeAssayThis function imputes assays values inside a...
makeGRangesListFromCopyNumberMake a GRangesList from TCGA Copy Number data
makeGRangesListFromExonFilesRead Exon level files and create a GRangesList
makeSummarizedExperimentFromGISTICCreate a SummarizedExperiment from FireHose GISTIC
mergeColDataTake a MultiAssayExperiment and include curated variables
mirToRangesConvert SummarizedExperiment elements with microRNA to...
qreduceTCGASimplify curatedTCGAData objects by replacing...
sampleTypesBarcode Sample Type Table
simplifyTCGATitle All-in-one simplification of curatedTCGAData objects
symbolsToRangesConvert SummarizedExperiment elements with gene symbols to...
TCGAbarcodeParse data from TCGA barcode
TCGAbiospecExtract biospecimen data from the TCGA barcode
TCGAsampleSelectSelect samples from barcodes from lookup table
TCGAutils-packageTCGAutils: Helper functions for working with TCGA and...
waldronlab/BiocInterfaces documentation built on Aug. 3, 2018, 3:20 p.m.