rrvgo
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see rrvgo.
Reduce + Visualize GO
Bioconductor version: 3.19
Reduce and visualize lists of Gene Ontology terms by identifying redudance based on semantic similarity.
Author: Sergi Sayols [aut, cre], Sara Elmeligy [ctb]
Maintainer: Sergi Sayols <sergisayolspuig at gmail.com>
Citation (from within R, enter
citation("rrvgo")):
Installation
To install this package, start R (version "4.4") 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")| Using rrvgo | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Annotation, Clustering, GO, Network, Pathways, Software |
| Version | 1.16.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
| License | GPL-3 |
| Depends | |
| Imports | GOSemSim, AnnotationDbi, GO.db, pheatmap, ggplot2, ggrepel, treemap, tm, wordcloud, shiny, grDevices, grid, stats, methods, umap |
| System Requirements | |
| URL | https://www.bioconductor.org/packages/rrvgo https://ssayols.github.io/rrvgo/index.html |
See More
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | genekitr, scDiffCom |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | rrvgo_1.16.0.tar.gz |
| Windows Binary (x86_64) | rrvgo_1.16.0.zip (64-bit only) |
| macOS Binary (x86_64) | rrvgo_1.16.0.tgz |
| macOS Binary (arm64) | rrvgo_1.16.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rrvgo |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rrvgo |
| Bioc Package Browser | https://code.bioconductor.org/browse/rrvgo/ |
| Package Short Url | https://bioconductor.org/packages/rrvgo/ |
| Package Downloads Report | Download Stats |