$,BSgenome-method	BSgenome-class
available.genomes	available.genomes
available.SNPs	injectSNPs
bsapply	bsapply
BSgenome	BSgenome-class
BSgenome-class	BSgenome-class
BSgenome-utils	BSgenome-utils
BSgenomeDataPkgSeed	BSgenomeForge
BSgenomeDataPkgSeed-class	BSgenomeForge
BSgenomeForge	BSgenomeForge
bsgenomeName	GenomeDescription-class
bsgenomeName,GenomeDescription-method	GenomeDescription-class
BSParams	BSParams-class
BSParams-class	BSParams-class
class:BSgenome	BSgenome-class
class:BSgenomeDataPkgSeed	BSgenomeForge
class:BSParams	BSParams-class
class:GenomeDescription	GenomeDescription-class
class:InjectSNPsHandler	injectSNPs
coerce,GenomeData,data.frame-method	GenomeData-class
coerce,GenomeData,RangedData-method	GenomeData-class
coerce,GenomeData,RangesList-method	GenomeData-class
coerce,GenomeDataList,data.frame-method	GenomeDataList-class
countPWM,BSgenome-method	BSgenome-utils
forgeBSgenomeDataPkg	BSgenomeForge
forgeBSgenomeDataPkg,BSgenomeDataPkgSeed-method	BSgenomeForge
forgeBSgenomeDataPkg,character-method	BSgenomeForge
forgeBSgenomeDataPkg,list-method	BSgenomeForge
forgeMasksFiles	BSgenomeForge
forgeSeqFiles	BSgenomeForge
forgeSeqlengthsFile	BSgenomeForge
gdApply	gdapply
gdapply	gdapply
gdapply,GenomeData,function-method	gdapply
gdapply,GenomeDataList,function-method	gdapply
gdReduce	gdReduce
gdreduce	gdReduce
gdReduce,GenomeData-method	gdReduce
gdReduce,GenomeDataList-method	gdReduce
GenomeData	GenomeData-class
GenomeData-class	GenomeData-class
GenomeDataList	GenomeDataList-class
GenomeDataList-class	GenomeDataList-class
GenomeDescription	GenomeDescription-class
GenomeDescription-class	GenomeDescription-class
getSeq,BSgenome-method	getSeq-methods
injectSNPs	injectSNPs
injectSNPs,BSgenome-method	injectSNPs
InjectSNPsHandler	injectSNPs
InjectSNPsHandler-class	injectSNPs
installed.genomes	available.genomes
installed.SNPs	injectSNPs
length,BSgenome-method	BSgenome-class
masknames	BSgenome-class
masknames,BSgenome-method	BSgenome-class
matchPWM,BSgenome-method	BSgenome-utils
mseqnames	BSgenome-class
mseqnames,BSgenome-method	BSgenome-class
names,BSgenome-method	BSgenome-class
organism	GenomeDescription-class
organism,GenomeData-method	GenomeData-class
organism,GenomeDescription-method	GenomeDescription-class
provider	GenomeDescription-class
provider,GenomeData-method	GenomeData-class
provider,GenomeDescription-method	GenomeDescription-class
providerVersion	GenomeDescription-class
providerVersion,GenomeData-method	GenomeData-class
providerVersion,GenomeDescription-method	GenomeDescription-class
releaseDate	GenomeDescription-class
releaseDate,GenomeDescription-method	GenomeDescription-class
releaseName	GenomeDescription-class
releaseName,GenomeDescription-method	GenomeDescription-class
seqinfo,BSgenome-method	BSgenome-class
seqinfo,GenomeDescription-method	GenomeDescription-class
seqinfo<-,BSgenome-method	BSgenome-class
seqnames<-,BSgenome-method	BSgenome-class
show,BSgenome-method	BSgenome-class
show,GenomeData-method	GenomeData-class
show,GenomeDescription-method	GenomeDescription-class
SNPcount	injectSNPs
SNPcount,BSgenome-method	injectSNPs
SNPcount,InjectSNPsHandler-method	injectSNPs
SNPlocs	injectSNPs
SNPlocs,BSgenome-method	injectSNPs
SNPlocs,InjectSNPsHandler-method	injectSNPs
SNPlocs_pkgname	injectSNPs
SNPlocs_pkgname,BSgenome-method	injectSNPs
SNPlocs_pkgname,InjectSNPsHandler-method	injectSNPs
sourceUrl	BSgenome-class
sourceUrl,BSgenome-method	BSgenome-class
species	GenomeDescription-class
species,GenomeDescription-method	GenomeDescription-class
vcountPattern,BSgenome-method	BSgenome-utils
vcountPDict,BSgenome-method	BSgenome-utils
vmatchPattern,BSgenome-method	BSgenome-utils
vmatchPDict,BSgenome-method	BSgenome-utils
[[,BSgenome-method	BSgenome-class
[[<-,BSgenome-method	BSgenome-class
