To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Rsubread")

In most cases, you don't need to download the package archive at all.

Rsubread

 

   

This is the development version of Rsubread; for the stable release version, see Rsubread.

Subread sequence alignment for R

Bioconductor version: Development (3.4)

Provides powerful and easy-to-use tools for analyzing next-gen sequencing read data. Includes quality assessment of sequence reads, read alignment, read summarization, exon-exon junction detection, fusion detection, detection of short and long indels, absolute expression calling and SNP calling. Can be used with reads generated from any of the major sequencing platforms including Illumina GA/HiSeq/MiSeq, Roche GS-FLX, ABI SOLiD and LifeTech Ion PGM/Proton sequencers.

Author: Wei Shi and Yang Liao with contributions from Jenny Zhiyin Dai and Timothy Triche, Jr.

Maintainer: Wei Shi <shi at wehi.edu.au>

Citation (from within R, enter citation("Rsubread")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Rsubread")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Rsubread")

 

PDF R Script Rsubread Vignette
PDF   Reference Manual

Details

biocViews Alignment, ChIPSeq, GeneExpression, GeneRegulation, GeneticVariability, Genetics, GenomeAnnotation, Preprocessing, QualityControl, RNASeq, SNP, SequenceMatching, Sequencing, Software
Version 1.23.4
In Bioconductor since BioC 2.8 (R-2.13) (5.5 years)
License GPL-3
Depends
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL http://bioconductor.org/packages/release/bioc/html/Rsubread.html
Depends On Me
Imports Me dupRadar
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source Rsubread_1.23.4.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks) Rsubread_1.23.4.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/Rsubread
Package Short Url http://bioconductor.org/packages/Rsubread/
Package Downloads Report Download Stats

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