Rsamtools

Import aligned BAM file format sequences into R / Bioconductor

Bioconductor version: Release (2.7)

This package provides an interface to the 'samtools' utilities for manipulating SAM (Sequence Alignment / Map) format files. Facilities currently available include flexible file input.

Author: Martin Morgan, Herv\'e Pag\`es

Maintainer: Biocore Team c/o BioC user list

To install this package, start R and enter:

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

Documentation

PDF

R Script

An introduction to Rsamtools

Reference Manual

Details

biocViews	DataImport, Sequencing, HighThroughputSequencing
Depends	methods, IRanges, GenomicRanges, Biostrings
Imports	methods, utils, IRanges, GenomicRanges, Biostrings
Suggests	ShortRead, GenomicFeatures, RUnit, KEGG.db
System Requirements
License	Artistic-2.0
URL	http://bioconductor.org/packages/release/bioc/html/Rsamtools.html
Depends On Me	ShortRead, girafe
Imports Me	R453Plus1Toolbox, ShortRead
Suggests Me	GenomicRanges, R453Plus1Toolbox
Version	1.2.3

Package Downloads

Package Source	Rsamtools_1.2.3.tar.gz
Windows Binary	Rsamtools_1.2.3.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	Rsamtools_1.2.3.tgz
Package Downloads Report	Download Stats