goseq

DOI: 10.18129/B9.bioc.goseq    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see goseq.

Gene Ontology analyser for RNA-seq and other length biased data

Bioconductor version: 3.8

Detects Gene Ontology and/or other user defined categories which are over/under represented in RNA-seq data

Author: Matthew Young

Maintainer: Nadia Davidson <nadia.davidson at mcri.edu.au>, Anthony Hawkins <anthony.hawkins at mcri.edu.au>

Installation

To install this package, start R (version "3.5") and enter:

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

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("goseq")

 

PDF	R Script	goseq User's Guide
PDF		Reference Manual

Details

biocViews	GO, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software, Transcription
Version	1.34.1
In Bioconductor since	BioC 2.6 (R-2.11) (9 years)
License	LGPL (>= 2)
Depends	R (>= 2.11.0), BiasedUrn, geneLenDataBase(>= 1.9.2)
Imports	mgcv, graphics, stats, utils, AnnotationDbi, GO.db, BiocGenerics
LinkingTo
Suggests	edgeR, org.Hs.eg.db, rtracklayer
SystemRequirements
Enhances
URL
Depends On Me	rgsepd
Imports Me	ChAMP, ideal, PathwaySplice, SMITE
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	goseq_1.34.1.tar.gz
Windows Binary	goseq_1.34.1.zip
Mac OS X 10.11 (El Capitan)	goseq_1.34.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/goseq
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/goseq
Package Short Url	http://bioconductor.org/packages/goseq/
Package Downloads Report	Download Stats