BSgenome

Infrastructure for Biostrings-based genome data packages

Bioconductor version: Development (2.8)

Infrastructure shared by all the Biostrings-based genome data packages

Author: Herve Pages

Maintainer: H. Pages

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("BSgenome")    

Documentation

PDF R Script Efficient genome searching with Biostrings and the BSgenome data packages
PDF R Script How to forge a BSgenome data package

Reference Manual

Details

biocViews Genetics, Infrastructure, DataRepresentation, SequenceMatching, Annotation, SNP
Depends R, methods, IRanges, GenomicRanges, Biostrings
Imports
Suggests RUnit, BSgenome.Celegans.UCSC.ce2, BSgenome.Hsapiens.UCSC.hg19, SNPlocs.Hsapiens.dbSNP.20100427, hgu95av2probe, Biobase
System Requirements
License Artistic-2.0
URL
Depends On Me ChIPpeakAnno, MEDIPS, PICS, chipseq, rGADEM
Imports Me ChIPpeakAnno, MEDIPS, PICS, R453Plus1Toolbox, charm, chipseq, girafe, rtracklayer
Suggests Me Biostrings, GeneRegionScan, GenomicFeatures, GenomicRanges, MEDIPS, oneChannelGUI
Version 1.19.6

Package Downloads

Package Source BSgenome_1.19.6.tar.gz
Windows Binary BSgenome_1.19.5.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary BSgenome_1.19.5.tgz
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:

 

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center