To install this package, start R and enter:

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

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

ArrayExpressHTS

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see ArrayExpressHTS.

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: 3.0

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:

## try http:// if https:// URLs are not supported
source("https://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 1.16.0
In Bioconductor since BioC 2.8 (R-2.13) (5 years)
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
LinkingTo Rsamtools
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source ArrayExpressHTS_1.16.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard) ArrayExpressHTS_1.16.0.tgz
Mac OS X 10.9 (Mavericks) ArrayExpressHTS_1.16.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/ArrayExpressHTS/tree/release-3.0
Package Short Url http://bioconductor.org/packages/ArrayExpressHTS/
Package Downloads Report Download Stats

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