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goseq

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


Bioconductor version: Release (3.18)

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

Author: Matthew Young

Maintainer: Matthew Young <my4 at sanger.ac.uk>, Nadia Davidson <nadia.davidson at mcri.edu.au>

Citation (from within R, enter citation("goseq")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("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")
goseq User's Guide PDF R Script
Reference Manual PDF

Details

biocViews GO, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software, Transcription
Version 1.54.0
In Bioconductor since BioC 2.6 (R-2.11) (14 years)
License LGPL (>= 2)
Depends R (>= 2.11.0), BiasedUrn, geneLenDataBase(>= 1.9.2)
Imports mgcv, graphics, stats, utils, AnnotationDbi, GO.db, BiocGenerics
System Requirements
URL
See More
Suggests edgeR, org.Hs.eg.db, rtracklayer
Linking To
Enhances
Depends On Me rgsepd
Imports Me ChAMP, ideal, SMITE
Suggests Me sparrow
Links To Me
Build Report Build Report

Package Archives

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

Source Package goseq_1.54.0.tar.gz
Windows Binary goseq_1.54.0.zip (64-bit only)
macOS Binary (x86_64) goseq_1.54.0.tgz
macOS Binary (arm64) goseq_1.54.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/goseq
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/goseq
Bioc Package Browser https://code.bioconductor.org/browse/goseq/
Package Short Url https://bioconductor.org/packages/goseq/
Package Downloads Report Download Stats