align	align
atgcContent	atgcContent
buildindex	buildindex
createAnnotationFile	createAnnotationFile
detectionCall	detectionCall
detectionCallAnnotation	detectionCallAnnotation
exactSNP	exactSNP
featureCounts	featureCounts
findCommonVariants	findCommonVariants
flattenGTF	flattenGTF
getInBuiltAnnotation	getInBuiltAnnotation
processExons	processExons
promoterRegions	promoterRegions
propmapped	propmapped
qualityScores	qualityScores
removeDupReads	removeDupReads
repair	repair
RsubreadUsersGuide	RsubreadUsersGuide
sam2bed	sam2bed
subjunc	align
sublong	sublong
txUnique	txUnique
write.Rsubread	createAnnotationFile
