This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ArrayExpressHTS.
Bioconductor version: 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")
):
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.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ArrayExpressHTS")
R Script | ArrayExpressHTS: RNA-Seq Pipeline for transcription profiling experiments | |
Reference Manual | ||
Text | NEWS |
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 |
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 | https://bioconductor.org/packages/ArrayExpressHTS/ |
Package Downloads Report | Download Stats |
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