ArrayExpressHTS

DOI: 10.18129/B9.bioc.ArrayExpressHTS    

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: Release (3.6)

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>

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	1.28.0
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, 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_1.28.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)	ArrayExpressHTS_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ArrayExpressHTS
Package Short Url	http://bioconductor.org/packages/ArrayExpressHTS/
Package Downloads Report	Download Stats