Rbowtie

R bowtie wrapper

Bioconductor version: Development (3.0)

This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool. The package is used by the QuasR bioconductor package. We recommend to use the QuasR package instead of using Rbowtie directly.

Author: Florian Hahne, Anita Lerch, Michael B Stadler

Maintainer: Michael Stadler <michael.stadler at fmi.ch>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("Rbowtie")

Documentation

PDF R Script An introduction to Rbowtie
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews Alignment, Sequencing, Software
Version 1.5.0
In Bioconductor since BioC 2.12 (R-3.0)
License Artistic-1.0 | file LICENSE
Depends
Imports
Suggests parallel
System Requirements
URL
Depends On Me QuasR
Imports Me
Suggests Me

Package Downloads

Package Source Rbowtie_1.5.0.tar.gz
Windows Binary Rbowtie_1.5.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) Rbowtie_1.5.0.tgz
Mac OS X 10.9 (Mavericks)
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