API for RGLab/RNASeqPipelineR
Construct Standardized pipelines for processing RNASeq data

Global functions
AlignmentSTAR Man page Source code
MiTCR Man page Source code
QualityControl Man page Source code
RNASeqPipeline Man page
RNASeqPipeline-package Man page
RSEMAssembleExpressionMatrix Man page Source code
RSEMCalculateExpression Man page Source code
RSEMSummarizeMapping Man page Source code
SRAOverview Man page Source code
annotateSRA Man page Source code
annotateUCSC Man page Source code
annotationsFromSRX Man page Source code
assignConfig Man page Source code
buildGenomeIndexSTAR Man page Source code
buildGenomeIndexSTAR2 Man page Source code
buildReference Man page Source code
collectFastqcFiles Source code
concatenateFastq Man page Source code
configure_project Man page Source code
convertSRAtoFastQ Man page Source code
createGenomeDict Source code
createProject Man page Source code
createSampleFile Source code
detectAspera Man page Source code
devel_truncateData Man page Source code
dir.exists Source code
downloadSRA Man page Source code
getAndConnectSRAdb Man page Source code
getConfig Man page Source code
getConfigDir Man page Source code
getConfigFile Man page Source code
getDataFromSRX Man page Source code
getExpressionSet Man page Source code
loadImmportTables Man page Source code
loadProject Man page Source code
mergeData Man page Source code
pear Man page Source code
pipelineReport Man page Source code
qualityRNASeQC Man page Source code
readConfig Man page Source code
runFastQC Man page Source code
saveConfig Man page Source code
sequenceAlignmentTopHat Man page Source code
stripExtension Source code
sumDuplicates Man page Source code
summarizeDuplication Man page Source code
summarizeFastQC Man page Source code
RGLab/RNASeqPipelineR documentation built on Oct. 30, 2017, 1:20 p.m.