$,Enhancers-method	Enhancers-class
$<-,Enhancers-method	Enhancers-class
alignment	alignment
alignmentOne	alignmentOne
coerce	Enhancers-class
coerce,Enhancers,GRanges-method	Enhancers-class
conservedMotifs	conservedMotifs
distance	Enhancers-class
distance,Enhancers,ANY-method	Enhancers-class
distance,Enhancers-method	Enhancers-class
distance<-	Enhancers-class
distance<-,Enhancers,ANY-method	Enhancers-class
distance<-,Enhancers-method	Enhancers-class
Enhancers	Enhancers-class
Enhancers-class	Enhancers-class
genome	Enhancers-class
genome,Enhancers-method	Enhancers-class
genome<-	Enhancers-class
genome<-,Enhancers,BSgenome-method	Enhancers-class
genome<-,Enhancers-method	Enhancers-class
getENCODEdata	getENCODEdata
getSeq,Enhancers-method	Enhancers-class
motifs	motifs
peaks	Enhancers-class
peaks,Enhancers-method	Enhancers-class
peaks<-	Enhancers-class
peaks<-,Enhancers,GRanges-method	Enhancers-class
peaks<-,Enhancers-method	Enhancers-class
queryEncode	queryEncode
query_tfbp	Enhancers-class
query_tfbp,Enhancers,ANY-method	Enhancers-class
query_tfbp,Enhancers-method	Enhancers-class
saveAlignments	saveAlignments
searchTFBPS	searchTFBPS
seqinfo,Enhancers-method	Enhancers-class
show,Enhancers-method	Enhancers-class
shuffle	shuffle
subset,Enhancers-method	Enhancers-class
subsetByOverlaps,Enhancers,ANY-method	Enhancers-class
subsetByOverlpas,Enhancers-method	Enhancers-class
tfbp	Enhancers-class
tfbp,Enhancers,ANY-method	Enhancers-class
tfbp,Enhancers-method	Enhancers-class
