Package: BSgenome
Title: Software infrastructure for efficient representation of full genomes and their SNPs
Description: Infrastructure shared by all the Biostrings-based genome data
	packages.
biocViews: Genetics, Infrastructure, DataRepresentation, SequenceMatching,
	Annotation, SNP
URL: https://bioconductor.org/packages/BSgenome
BugReports: https://github.com/Bioconductor/BSgenome/issues
Version: 1.79.1
License: Artistic-2.0
Encoding: UTF-8
Authors@R: person("Hervé", "Pagès", role=c("aut", "cre"),
		  email="hpages.on.github@gmail.com")
Depends: R (>= 2.8.0), methods, BiocGenerics (>= 0.13.8),
	S4Vectors (>= 0.47.6), IRanges (>= 2.13.16),
	Seqinfo, GenomicRanges (>= 1.61.1),
	Biostrings (>= 2.77.2), BiocIO, rtracklayer (>= 1.69.1)
Imports: utils, stats, matrixStats, XVector, Rsamtools (>= 2.25.1)
Suggests: BiocManager, GenomeInfoDb,
	BSgenome.Celegans.UCSC.ce2,
	BSgenome.Hsapiens.UCSC.hg38,
	BSgenome.Hsapiens.UCSC.hg38.masked,
	BSgenome.Mmusculus.UCSC.mm10,
	BSgenome.Rnorvegicus.UCSC.rn5,
	BSgenome.Scerevisiae.UCSC.sacCer1,
	BSgenome.Hsapiens.NCBI.GRCh38,
	TxDb.Hsapiens.UCSC.hg38.knownGene,
	TxDb.Mmusculus.UCSC.mm10.knownGene,
	SNPlocs.Hsapiens.dbSNP144.GRCh38,
	XtraSNPlocs.Hsapiens.dbSNP144.GRCh38,
	hgu95av2probe,
	RUnit,
	BSgenomeForge
LazyLoad: yes
Collate: utils.R
	OnDiskLongTable_old-class.R
	OnDiskLongTable-class.R
	OnDiskNamedSequences-class.R
	SNPlocs-class.R
	ODLT_SNPlocs-class.R
	OldFashionSNPlocs-class.R
	InjectSNPsHandler-class.R
	XtraSNPlocs-class.R
	BSgenome-class.R
	available.genomes.R
	injectSNPs.R
	getSeq-methods.R
	extractAt-methods.R
	bsapply.R
	BSgenomeViews-class.R
	BSgenome-utils.R
	export-methods.R
	AdvancedBSgenomeForge.R
git_url: https://git.bioconductor.org/packages/BSgenome
git_branch: devel
git_last_commit: c2fc0db
git_last_commit_date: 2025-11-03
Repository: Bioconductor 3.23
