A B C D E F G H I L M N O P R S U V W X misc
| alphabetFrequency-method | BSgenomeViews objects |
| as.character-method | BSgenomeViews objects |
| as.data.frame-method | BSgenomeViews objects |
| as.list-method | BSgenome objects |
| available.genomes | Find available/installed genomes |
| available.SNPs | SNP injection |
| bsapply | bsapply |
| BSgenome | BSgenome objects |
| BSgenome-class | BSgenome objects |
| BSgenome-utils | BSgenome utilities |
| BSgenomeDataPkgSeed | The BSgenomeForge functions |
| BSgenomeDataPkgSeed-class | The BSgenomeForge functions |
| BSgenomeForge | The BSgenomeForge functions |
| BSgenomeViews | BSgenomeViews objects |
| BSgenomeViews-class | BSgenomeViews objects |
| BSParams | Class "BSParams" |
| BSParams-class | Class "BSParams" |
| class:BSgenome | BSgenome objects |
| class:BSgenomeDataPkgSeed | The BSgenomeForge functions |
| class:BSgenomeViews | BSgenomeViews objects |
| class:BSParams | Class "BSParams" |
| class:InjectSNPsHandler | SNP injection |
| class:SNPlocs | SNPlocs objects |
| class:XtraSNPlocs | XtraSNPlocs objects |
| coerce-method | BSgenomeViews objects |
| colnames-method | XtraSNPlocs objects |
| commonName-method | SNPlocs objects |
| commonName-method | XtraSNPlocs objects |
| compatibleGenomes | SNPlocs objects |
| compatibleGenomes-method | SNPlocs objects |
| consensusMatrix-method | BSgenomeViews objects |
| consensusString-method | BSgenomeViews objects |
| countPWM-method | BSgenome utilities |
| dim-method | XtraSNPlocs objects |
| elementLengths-method | BSgenomeViews objects |
| end-method | BSgenomeViews objects |
| export-method | Export a BSgenome object as a FASTA or twoBit file |
| export-methods | Export a BSgenome object as a FASTA or twoBit file |
| extractROWS-method | BSgenomeViews objects |
| forgeBSgenomeDataPkg | The BSgenomeForge functions |
| forgeBSgenomeDataPkg-method | The BSgenomeForge functions |
| forgeMasksFiles | The BSgenomeForge functions |
| forgeSeqFiles | The BSgenomeForge functions |
| forgeSeqlengthsFile | The BSgenomeForge functions |
| getBSgenome | Find available/installed genomes |
| getListElement-method | BSgenomeViews objects |
| getSeq-method | getSeq method for BSgenome and XStringSet objects |
| granges-method | BSgenomeViews objects |
| hasOnlyBaseLetters-method | BSgenomeViews objects |
| injectSNPs | SNP injection |
| injectSNPs-method | SNP injection |
| InjectSNPsHandler | SNP injection |
| InjectSNPsHandler-class | SNP injection |
| installed.genomes | Find available/installed genomes |
| installed.SNPs | SNP injection |
| length-method | BSgenome objects |
| length-method | BSgenomeViews objects |
| letterFrequency-method | BSgenomeViews objects |
| masknames | BSgenome objects |
| masknames-method | BSgenome objects |
| matchPWM-method | BSgenome utilities |
| mseqnames | BSgenome objects |
| mseqnames-method | BSgenome objects |
| names-method | BSgenome objects |
| names-method | BSgenomeViews objects |
| nchar-method | BSgenomeViews objects |
| newSNPlocs | SNPlocs objects |
| newXtraSNPlocs | XtraSNPlocs objects |
| nucleotideFrequencyAt-method | BSgenomeViews objects |
| oligonucleotideFrequency-method | BSgenomeViews objects |
| organism-method | SNPlocs objects |
| organism-method | XtraSNPlocs objects |
| provider-method | SNPlocs objects |
| provider-method | XtraSNPlocs objects |
| providerVersion-method | SNPlocs objects |
| providerVersion-method | XtraSNPlocs objects |
| ranges-method | BSgenomeViews objects |
| referenceGenome | SNPlocs objects |
| referenceGenome-method | SNPlocs objects |
| referenceGenome-method | XtraSNPlocs objects |
| releaseDate-method | SNPlocs objects |
| releaseDate-method | XtraSNPlocs objects |
| releaseName-method | SNPlocs objects |
| releaseName-method | XtraSNPlocs objects |
| seqinfo-method | BSgenome objects |
| seqinfo-method | BSgenomeViews objects |
| seqinfo-method | SNPlocs objects |
| seqinfo-method | XtraSNPlocs objects |
| seqinfo<--method | BSgenome objects |
| seqnames-method | BSgenomeViews objects |
| seqnames-method | SNPlocs objects |
| seqnames-method | XtraSNPlocs objects |
| seqnames<--method | BSgenome objects |
| seqtype-method | BSgenomeViews objects |
| show-method | BSgenome objects |
| show-method | BSgenomeViews objects |
| show-method | SNPlocs objects |
| show-method | XtraSNPlocs objects |
| SNPcount | SNP injection |
| snpcount | SNPlocs objects |
| SNPcount-method | SNP injection |
| snpcount-method | SNPlocs objects |
| snpcount-method | XtraSNPlocs objects |
| snpcount-method | SNP injection |
| snpid2alleles | SNPlocs objects |
| snpid2alleles-method | SNPlocs objects |
| snpid2grange | SNPlocs objects |
| snpid2grange-method | SNPlocs objects |
| snpid2loc | SNPlocs objects |
| snpid2loc-method | SNPlocs objects |
| SNPlocs | SNPlocs objects |
| snplocs | SNPlocs objects |
| SNPlocs-class | SNPlocs objects |
| SNPlocs-method | SNP injection |
| snplocs-method | SNPlocs objects |
| snplocs-method | SNP injection |
| SNPlocs_pkgname | SNP injection |
| SNPlocs_pkgname-method | SNP injection |
| snpsById | SNPlocs objects |
| snpsById-method | SNPlocs objects |
| snpsById-method | XtraSNPlocs objects |
| snpsByOverlaps | SNPlocs objects |
| snpsByOverlaps-method | SNPlocs objects |
| snpsByOverlaps-method | XtraSNPlocs objects |
| snpsBySeqname | SNPlocs objects |
| snpsBySeqname-method | SNPlocs objects |
| snpsBySeqname-method | XtraSNPlocs objects |
| sourceUrl | BSgenome objects |
| sourceUrl-method | BSgenome objects |
| species-method | SNPlocs objects |
| species-method | XtraSNPlocs objects |
| start-method | BSgenomeViews objects |
| strand-method | BSgenomeViews objects |
| subject-method | BSgenomeViews objects |
| uniqueLetters-method | BSgenomeViews objects |
| unlist-method | BSgenomeViews objects |
| vcountPattern-method | BSgenome utilities |
| vcountPDict-method | BSgenome utilities |
| Views-method | BSgenomeViews objects |
| vmatchPattern-method | BSgenome utilities |
| vmatchPDict-method | BSgenome utilities |
| width-method | BSgenomeViews objects |
| XtraSNPlocs | XtraSNPlocs objects |
| XtraSNPlocs-class | XtraSNPlocs objects |
| $-method | BSgenome objects |
| [[-method | BSgenome objects |