ballgown-package	ballgown-package
annotate_assembly	annotate_assembly
Ballgown	ballgown-class
ballgown	ballgown-constructor
ballgown-class	ballgown-class
ballgown-constructor	ballgown-constructor
ballgownp	ballgown-package
ballgownrsem	ballgownrsem
bg	bg
checkAssembledTx	checkAssembledTx
clusterTranscripts	clusterTranscripts
collapseTranscripts	collapseTranscripts
contains	contains
dirs	dirs
dirs,ballgown-method	dirs
eexpr	eexpr
eexpr,ballgown-method	eexpr
expr	expr
expr,ballgown-method	expr
expr<-	expr-replace
expr<-,ballgown-method	expr-replace
exprfilter	exprfilter
geneIDs	geneIDs
geneIDs,ballgown-method	geneIDs
geneNames	geneNames
geneNames,ballgown-method	geneNames
getAttributeField	getAttributeField
getGenes	getGenes
gexpr	gexpr
gexpr,ballgown-method	gexpr
gffRead	gffRead
gffReadGR	gffReadGR
iexpr	iexpr
iexpr,ballgown-method	iexpr
indexes	indexes
indexes,ballgown-method	indexes
indexes<-	indexes-replace
indexes<-,ballgown-method	indexes-replace
last	last
mergedDate	mergedDate
mergedDate,ballgown-method	mergedDate
pctOverlap	pctOverlap
pData	pData
pData,ballgown-method	pData
pData<-	pData-replace
pData<-,ballgown,ANY-method	pData-replace
plotLatentTranscripts	plotLatentTranscripts
plotMeans	plotMeans
plotTranscripts	plotTranscripts
sampleNames	sampleNames
sampleNames,ballgown-method	sampleNames
seqnames	seqnames
seqnames,ballgown-method	seqnames
stattest	stattest
structure	structure
structure,ballgown-method	structure
subset	subset
subset,ballgown-method	subset
texpr	texpr
texpr,ballgown-method	texpr
tGene	tGene
transcriptIDs	transcriptIDs
transcriptIDs,ballgown-method	transcriptIDs
transcriptNames	transcriptNames
transcriptNames,ballgown-method	transcriptNames
writeFiles	writeFiles
