JunctionSeqCountSet-class
                        Class '"JunctionSeqCountSet"'
buildAllPlots           Create and save a full battery of JunctionSeq
                        expression plots.
buildAllPlotsForGene    Create and save one or more JunctionSeq
                        expression plots.
defaultColorList        JunctionSeq Color Parameters
estimateEffectSizes     Estimate Effect Sizes, parameter estimates,
                        etc.
estimateJunctionSeqDispersions
                        JunctionSeq Dispersion Estimation
estimateJunctionSeqSizeFactors
                        Estimate Size Factors
fitJunctionSeqDispersionFunction
                        Fit Shared Dispersion Function
plotDispEsts            Plot Fitted and Test-wise Dispersion
plotJunctionSeqResultsForGene
                        Generate a JunctionSeq expression plot.
plotMA                  Generate a MA-Plot
readAnnotationData      Read junctionSeq annotation files produced by
                        QoRTs.
readJunctionSeqCounts   Read junctionSeq count files
runJunctionSeqAnalyses
                        Run a JunctionSeq analysis.
setJunctionSeqCompiledSourcePackage
                        Set the source of the internal compiled C++
                        binaries.
testForDiffUsage        Test Junctions for Differential Junction Usage
writeCompleteResults    Produce output data files, given annotation
                        files and DEXSeq exonCountSet object and DEXSeq
                        results data.
writeExprBedTrack       Write splice junction browser tracks
