goseq
This is the development version of goseq; for the stable release version, see goseq.
Gene Ontology analyser for RNA-seq and other length biased data
Bioconductor version: Development (3.21)
Detects Gene Ontology and/or other user defined categories which are over/under represented in RNA-seq data.
Author: Matthew Young [aut], Nadia Davidson [aut], Federico Marini [ctb, cre] (ORCID:
Maintainer: Federico Marini <marinif at uni-mainz.de>
citation("goseq")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, ImmunoOncology, KEGG, Pathways, RNASeq, Sequencing, Software, Transcription |
| Version | 1.59.0 |
| In Bioconductor since | BioC 2.6 (R-2.11) (14.5 years) |
| License | LGPL (>= 2) |
| Depends | R (>= 2.11.0), BiasedUrn, geneLenDataBase(>= 1.9.2) |
| Imports | mgcv, graphics, stats, utils, AnnotationDbi, GO.db, BiocGenerics, methods, rtracklayer, GenomicFeatures, GenomeInfoDb |
| System Requirements | |
| URL | https://github.com/federicomarini/goseq |
| Bug Reports | https://github.com/federicomarini/goseq/issues |
See More
| Suggests | edgeR, org.Hs.eg.db |
| Linking To | |
| Enhances | |
| Depends On Me | rgsepd |
| Imports Me | Damsel, ideal, mosdef, 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_1.59.0.tar.gz |
| Windows Binary (x86_64) | goseq_1.59.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |