$<-,DEXSeqDataSet-method	otherMethods
colData<-,DEXSeqDataSet,DataFrame-method	otherMethods
counts	counts
counts,DEXSeqResults-method	counts
DEXSeq	DEXSeq
DEXSeq-defunct	DEXSeq-defunct
DEXSeqDataSet	DEXSeqDataSet
DEXSeqDataSet-class	DEXSeqDataSet
DEXSeqDataSetFromHTSeq	DEXSeqDataSet
DEXSeqDataSetFromSE	DEXSeqDataSet
DEXSeqHTML	DEXSeqHTML
DEXSeqResults	DEXSeqResults
DEXSeqResults-class	DEXSeqResults
estimateDispersions	estimateDispersions
estimateDispersions,DEXSeqDataSet-method	estimateDispersions
estimateExonFoldChanges	estimateExonFoldChanges
estimateSizeFactors	estimateSizeFactors
estimateSizeFactors,DEXSeqDataSet-method	estimateSizeFactors
exonIDs	accessors
exonIDs<-	accessors
featureCounts	accessors
featureIDs	accessors
featureIDs<-	accessors
findOverlaps	methods-gr
findOverlaps,DEXSeqResults,GenomicRanges-method	methods-gr
findOverlaps-methods	methods-gr
geneIDs	accessors
geneIDs<-	accessors
groupIDs	accessors
groupIDs<-	accessors
perGeneQValue	perGeneQValue
plotDEXSeq	plotDEXSeq
plotDispEsts	plotDispEsts
plotDispEsts,DEXSeqDataSet-method	plotDispEsts
plotMA	plotMA
plotMA,DEXSeqDataSet-method	plotMA
plotMA,DEXSeqResults-method	plotMA
plotMA-methods	plotMA
sampleAnnotation	accessors
subsetByOverlaps	methods-gr
subsetByOverlaps,DEXSeqResults,GenomicRanges-method	methods-gr
subsetByOverlaps-methods	methods-gr
testForDEU	testForDEU
[,DEXSeqDataSet,ANY,ANY-method	otherMethods
[,DEXSeqDataSet,ANY-method	otherMethods
[,DEXSeqDataSet-method	otherMethods