ArrayExpressHTS

DOI: 10.18129/B9.bioc.ArrayExpressHTS    

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: Release (3.7)

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("http://bioc.ism.ac.jp/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 1.30.0
In Bioconductor since BioC 2.8 (R-2.13) (7 years)
License Artistic License 2.0
Depends sampling, Rsamtools(>= 1.19.36), snow
Imports Biobase, BiocGenerics, Biostrings, DESeq, GenomicRanges, Hmisc, IRanges(>= 2.13.11), 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.

Source Package ArrayExpressHTS_1.30.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) ArrayExpressHTS_1.30.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ArrayExpressHTS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ArrayExpressHTS
Package Short Url http://bioconductor.org/packages/ArrayExpressHTS/
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