# Infrastructure for Biostrings-based genome data packages

## Documentation for package ‘BSgenome’ version 1.30.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

$-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
bsgenomeName | GenomeDescription objects
bsgenomeName-method | GenomeDescription objects
BSParams | Class "BSParams"
BSParams-class | Class "BSParams"
class:BSgenome | BSgenome objects
class:BSgenomeDataPkgSeed | The BSgenomeForge functions
class:BSParams | Class "BSParams"
class:GenomeDescription | GenomeDescription objects
class:InjectSNPsHandler | SNP injection
coerce-method | Data on the genome
coerce-method | List of GenomeData objects
countPWM-method | BSgenome utilities
forgeBSgenomeDataPkg | The BSgenomeForge functions
forgeBSgenomeDataPkg-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-method | Applies a function to elements of a GenomeData
gdReduce | Reduces arguments to a single GenomeData instance
gdreduce | Reduces arguments to a single GenomeData instance
gdReduce-method | Reduces arguments to a single GenomeData instance
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-method | getSeq method for BSgenome 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
masknames | BSgenome objects
masknames-method | BSgenome objects
matchPWM-method | BSgenome utilities
mseqnames | BSgenome objects
mseqnames-method | BSgenome objects
names-method | BSgenome objects
organism | GenomeDescription objects
organism-method | Data on the genome
organism-method | GenomeDescription objects
provider | GenomeDescription objects
provider-method | Data on the genome
provider-method | GenomeDescription objects
providerVersion | GenomeDescription objects
providerVersion-method | Data on the genome
providerVersion-method | GenomeDescription objects
releaseDate | GenomeDescription objects
releaseDate-method | GenomeDescription objects
releaseName | GenomeDescription objects
releaseName-method | GenomeDescription objects
seqinfo-method | BSgenome objects
seqinfo-method | GenomeDescription objects
seqinfo<--method | BSgenome objects
seqnames<--method | BSgenome objects
show-method | BSgenome objects
show-method | Data on the genome
show-method | GenomeDescription objects
SNPcount | SNP injection
SNPcount-method | SNP injection
SNPlocs | SNP injection
SNPlocs-method | SNP injection
SNPlocs_pkgname | SNP injection
SNPlocs_pkgname-method | SNP injection
sourceUrl | BSgenome objects
sourceUrl-method | BSgenome objects
species | GenomeDescription objects
species-method | GenomeDescription objects
vcountPattern-method | BSgenome utilities
vcountPDict-method | BSgenome utilities
vmatchPattern-method | BSgenome utilities
vmatchPDict-method | BSgenome utilities
[[-method | BSgenome objects
[[<--method | BSgenome objects