ArrayExpressHTS

DOI: 10.18129/B9.bioc.ArrayExpressHTS    

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: Release (3.9)

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 (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("ArrayExpressHTS")

For older versions of R, please refer to the appropriate Bioconductor release.

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 ImmunoOncology, RNASeq, Sequencing, Software
Version 1.34.2
In Bioconductor since BioC 2.8 (R-2.13) (8.5 years)
License Artistic License 2.0
Depends sampling, Rsamtools(>= 1.99.0), 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 Rhtslib(>= 1.15.3)
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package ArrayExpressHTS_1.34.2.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) ArrayExpressHTS_1.34.2.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/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive

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