rrvgo

DOI: 10.18129/B9.bioc.rrvgo    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see rrvgo.

Reduce + Visualize GO

Bioconductor version: 3.15

Reduce and visualize lists of Gene Ontology terms by identifying redudance based on semantic similarity.

Author: Sergi Sayols [aut, cre]

Maintainer: Sergi Sayols <sergisayolspuig at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("rrvgo")

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("rrvgo")

 

HTML	R Script	Using rrvgo
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Annotation, Clustering, GO, Network, Pathways, Software
Version	1.8.0
In Bioconductor since	BioC 3.11 (R-4.0) (2.5 years)
License	GPL-3
Depends
Imports	GOSemSim, AnnotationDbi, GO.db, pheatmap, ggplot2, ggrepel, treemap, tm, wordcloud, shiny, grDevices, grid, stats, methods
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle, testthat (>= 2.1.0), shinydashboard, DT, plotly, heatmaply, magrittr, utils, clusterProfiler, DOSE, slam, org.Ag.eg.db, org.At.tair.db, org.Bt.eg.db, org.Ce.eg.db, org.Cf.eg.db, org.Dm.eg.db, org.Dr.eg.db, org.EcK12.eg.db, org.EcSakai.eg.db, org.Gg.eg.db, org.Hs.eg.db, org.Mm.eg.db, org.Mmu.eg.db, org.Pt.eg.db, org.Rn.eg.db, org.Sc.sgd.db, org.Ss.eg.db, org.Xl.eg.db
SystemRequirements
Enhances
URL	https://www.bioconductor.org/packages/rrvgo https://ssayols.github.io/rrvgo/index.html
Depends On Me
Imports Me
Suggests Me	genekitr
Links To Me
Build Report

Package Archives

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

Source Package	rrvgo_1.8.0.tar.gz
Windows Binary	rrvgo_1.8.0.zip
macOS Binary (x86_64)	rrvgo_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rrvgo
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rrvgo
Package Short Url	https://bioconductor.org/packages/rrvgo/
Package Downloads Report	Download Stats