To install this package, start R and enter:

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

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

ArrayExpressHTS

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: Release (2.14)

RNA-Seq processing pipeline for public ArrayExpress experiments or local datasets

Author: Angela Goncalves, Andrew Tikhonov

Maintainer: Angela Goncalves <filimon at ebi.ac.uk>, Andrew Tikhonov <andrew at ebi.ac.uk>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("ArrayExpressHTS")

 

PDF R Script ArrayExpressHTS: RNA-Seq Pipeline for transcription profiling experiments
PDF   Reference Manual
Text   NEWS

Details

biocViews RNASeq, Sequencing, Software
Version 1.14.0
In Bioconductor since BioC 2.8 (R-2.13)
License Artistic License 2.0
Depends sampling, Rsamtools(>= 1.3.32), snow
Imports Biobase, BiocGenerics, Biostrings, DESeq, GenomicRanges, Hmisc, IRanges, R2HTML, RColorBrewer, Rsamtools, ShortRead, XML, biomaRt, edgeR, grDevices, graphics, methods, rJava, stats, svMisc, utils, sendmailR, bitops
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System Requirements
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Depends On Me
Imports Me
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Package Archives

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

Package Source ArrayExpressHTS_1.14.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard) ArrayExpressHTS_1.14.0.tgz
Mac OS X 10.9 (Mavericks) ArrayExpressHTS_1.14.0.tgz
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