Biostrings

String objects representing biological sequences, and matching algorithms

Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or set of sequences.

Author H. Pages, P. Aboyoun, R. Gentleman, and S. DebRoy

Maintainer H. Pages

To install this package, start R and enter:

 source("http://bioconductor.org/biocLite.R")
 biocLite("Biostrings")

Documentation

Package Downloads

Pairwise Sequence Alignments

A short presentation of the basic classes defined in Biostrings 2

Some old notes about the vectorization feature of the DNAString() constructor. Not for the end user.

Efficient genome searching with Biostrings and the BSgenome data packages

Reference Manual

Package source	Biostrings_2.10.22.tar.gz
Windows binary	Biostrings_2.10.22.zip
MacOS X 10.4 (Tiger) binary	Biostrings_2.10.22.tgz
MacOS X 10.5 (Leopard) binary	Biostrings_2.10.22.tgz
Package Downloads Report	Downloads Stats

Details

System Requirements
biocViews	SequenceMatching , Genetics , Infrastructure
Depends	R , methods , utils , IRanges
Imports	methods , utils , IRanges
Suggests	BSgenome , BSgenome.Celegans.UCSC.ce2 , BSgenome.Dmelanogaster.UCSC.dm3 , drosophila2probe , hgu95av2probe , RUnit
License	Artistic-2.0
URL
Depends On Me	BSgenome , GGtools , ShortRead , altcdfenvs
Imports Me	AffyCompatible , BCRANK , MEDME , SLGI , ShortRead , rtracklayer
Suggests Me	annotate , oneChannelGUI
Development History	Bioconductor Changelog