BSgenome
This is the development version of BSgenome; for the stable release version, see BSgenome.
Software infrastructure for efficient representation of full genomes and their SNPs
Bioconductor version: Development (3.23)
Infrastructure shared by all the Biostrings-based genome data packages.
Author: Hervé Pagès [aut, cre]
Maintainer: Hervé Pagès <hpages.on.github at gmail.com>
Citation (from within R, enter
citation("BSgenome")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("BSgenome")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Annotation, DataRepresentation, Genetics, Infrastructure, SNP, SequenceMatching, Software |
| Version | 1.77.2 |
| In Bioconductor since | BioC 1.9 (R-2.4) (19 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.8.0), methods, BiocGenerics(>= 0.13.8), S4Vectors(>= 0.17.28), 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) |
| System Requirements | |
| URL | https://bioconductor.org/packages/BSgenome |
| Bug Reports | https://github.com/Bioconductor/BSgenome/issues |
See More
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/BSgenome |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BSgenome |
| Package Short Url | https://bioconductor.org/packages/BSgenome/ |
| Package Downloads Report | Download Stats |