AllelicImbalance-package	AllelicImbalance-package
alleleCounts	ASEset
alleleCounts,ASEset-method	ASEset
AllelicImbalance	AllelicImbalance-package
ASEset	ASEset
ASEset-barplot	ASEset-barplot
ASEset-class	ASEset
ASEset-locationplot	ASEset-locationplot
ASEsetFromCountList	initialize-ASEset
barplot	ASEset-barplot
barplot,ASEset-method	ASEset-barplot
binom.test,ASEset-method	binom.test
chisq.test,ASEset-method	chisq.test
cigar-utilities	cigar-utilities
decorateWithExons	decorateWithExons
decorateWithGenes	decorateWithGenes
fraction	ASEset
fraction,ASEset-method	ASEset
getAlleleCounts	getAlleleCounts
getAlleleCounts2	getAlleleCounts2
getAnnotationDataFrame	getAnnotation-functions
getAreaFromGeneNames	getAreaFromGeneNames
getCDSFromAnnotation	getAnnotation-functions
getCDSVector	getAnnotation-functions
getDefaultMapBiasExpMean	getDefaultMapBiasExpMean
getDefaultMapBiasExpMean3D	getDefaultMapBiasExpMean
getExonsFromAnnotation	getAnnotation-functions
getExonsVector	getAnnotation-functions
getGenesFromAnnotation	getAnnotation-functions
getGenesVector	getAnnotation-functions
getSnpIdFromLocation	getSnpIdFromLocation
getTranscriptsFromAnnotation	getAnnotation-functions
getTranscriptsVector	getAnnotation-functions
GRvariants	GRvariants
impBamGAL	import-bam-functions
impBamGRL	import-bam-functions
impBcfGR	import-bcf-functions
impBcfGRL	import-bcf-functions
initialize-ASEset	initialize-ASEset
locationplot	ASEset-locationplot
locationplot,ASEset-method	ASEset-locationplot
mapBias	ASEset
mapBias,ASEset-method	ASEset
reads	reads
realCigarPosition	cigar-utilities
realCigarPositions	cigar-utilities
realCigarPositionsList	cigar-utilities
scanForHeterozygotes	scanForHeterozygotes
