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| $,BSgenome-method | BSgenome objects |
| available.genomes | Find available/installed genomes |
| available.SNPs | SNP injection |
| bsapply | bsapply |
| BSgenome | BSgenome objects |
| BSgenome | BSgenome objects |
| BSgenome-class | BSgenome objects |
| BSgenomeDataPkgSeed | The BSgenomeForge functions |
| BSgenomeDataPkgSeed-class | The BSgenomeForge functions |
| BSgenomeForge | The BSgenomeForge functions |
| BSParams | Class "BSParams" |
| BSParams-class | Class "BSParams" |
| class:BSgenome | BSgenome objects |
| class:BSgenomeDataPkgSeed | The BSgenomeForge functions |
| class:BSParams | Class "BSParams" |
| class:GenomeDescription | GenomeDescription objects |
| coerce,GenomeData,data.frame-method | Data on the genome |
| coerce,GenomeDataList,data.frame-method | List of GenomeData objects |
| forgeBSgenomeDataPkg | The BSgenomeForge functions |
| forgeBSgenomeDataPkg,BSgenomeDataPkgSeed-method | The BSgenomeForge functions |
| forgeBSgenomeDataPkg,character-method | The BSgenomeForge functions |
| forgeBSgenomeDataPkg,list-method | The BSgenomeForge functions |
| forgeMasksFiles | The BSgenomeForge functions |
| forgeSeqFiles | The BSgenomeForge functions |
| forgeSeqlengthsFile | The BSgenomeForge functions |
| gdApply | Applies a function to elements of a GenomeData |
| gdapply | Applies a function to elements of a GenomeData |
| gdApply,GenomeData,function-method | Applies a function to elements of a GenomeData |
| gdapply,GenomeData,function-method | Applies a function to elements of a GenomeData |
| gdApply,GenomeDataList,function-method | Applies a function to elements of a GenomeData |
| gdapply,GenomeDataList,function-method | Applies a function to elements of a GenomeData |
| GenomeData | Data on the genome |
| GenomeData-class | Data on the genome |
| GenomeDataList | List of GenomeData objects |
| GenomeDataList-class | List of GenomeData objects |
| GenomeDescription | GenomeDescription objects |
| GenomeDescription-class | GenomeDescription objects |
| getSeq | getSeq |
| getSeq,BSgenome-method | getSeq |
| injectSNPs | SNP injection |
| injectSNPs,BSgenome-method | SNP injection |
| installed.genomes | Find available/installed genomes |
| length,BSgenome-method | BSgenome objects |
| masknames | BSgenome objects |
| masknames,BSgenome-method | BSgenome objects |
| mseqnames | BSgenome objects |
| mseqnames,BSgenome-method | BSgenome objects |
| names,BSgenome-method | BSgenome objects |
| organism | GenomeDescription objects |
| organism,GenomeData-method | Data on the genome |
| organism,GenomeDescription-method | GenomeDescription objects |
| provider | GenomeDescription objects |
| provider,GenomeData-method | Data on the genome |
| provider,GenomeDescription-method | GenomeDescription objects |
| providerVersion | GenomeDescription objects |
| providerVersion,GenomeData-method | Data on the genome |
| providerVersion,GenomeDescription-method | GenomeDescription objects |
| releaseDate | GenomeDescription objects |
| releaseDate,GenomeDescription-method | GenomeDescription objects |
| releaseName | GenomeDescription objects |
| releaseName,GenomeDescription-method | GenomeDescription objects |
| seqlengths | BSgenome objects |
| seqlengths,BSgenome-method | BSgenome objects |
| seqnames | BSgenome objects |
| seqnames,BSgenome-method | BSgenome objects |
| show,BSgenome-method | BSgenome objects |
| show,GenomeData-method | Data on the genome |
| show,GenomeDescription-method | GenomeDescription objects |
| SNPcount | SNP injection |
| SNPcount,BSgenome-method | SNP injection |
| SNPlocs | SNP injection |
| SNPlocs,BSgenome-method | SNP injection |
| SNPlocs_pkgname | SNP injection |
| SNPlocs_pkgname,BSgenome-method | SNP injection |
| sourceUrl | BSgenome objects |
| sourceUrl,BSgenome-method | BSgenome objects |
| species | GenomeDescription objects |
| species,GenomeDescription-method | GenomeDescription objects |
| strand | Accessing strand information |
| strand,character-method | Accessing strand information |
| strand,missing-method | Accessing strand information |
| strand-methods | Accessing strand information |
| [[,BSgenome-method | BSgenome objects |
| [[<-,BSgenome-method | BSgenome objects |