ChipDataSet-class       ChipDataSet
TranscriptionDataSet-class
                        TranscriptionDataSet
addFeature              addFeature
annot                   Reference annotation (knownGene from UCSC)
annotateTranscripts     annotateTranscripts
breakTranscriptsByPeaks
                        breakTranscriptsByPeaks
cds                     Example of 'ChipDataSet' object.
constructCDS            constructCDS
constructTDS            constructTDS
detectTranscripts       detectTranscripts
estimateBackground      estimateBackground
estimateGapDistance     estimateGapDistance
exportCoverage          exportCoverage
getConfusionMatrix      getConfusionMatrix
getGenomicAnnot         getGenomicAnnot
getPeaks                getPeaks
getPredictorSignificance
                        getPredictorSignificance
getProbTreshold         getProbTreshold
getQuadProb             getQuadProb
getTestedGapDistances   getTestedGapDistances
getTranscripts          getTranscripts
peaksToBed              peaksToBed
plotErrorRate           plotErrorRate
plotFeatures            plotFeatures
plotGenomicAnnot        plotGenomicAnnot
plotROC                 plotROC
predictStrand           predictStrand
predictTssOverlap       predictTssOverlap
show                    Show method for ChipDataSet and
                        TranscriptionDataSet objects
tds                     Example of 'TranscriptionDataSet' object.
transcriptsToBed        transcriptsToBed
