RITAN
Rapid Integration of Term Annotation and Network resources
Bioconductor version: Release (3.20)
Tools for comprehensive gene set enrichment and extraction of multi-resource high confidence subnetworks. RITAN facilitates bioinformatic tasks for enabling network biology research.
Author: Michael Zimmermann [aut, cre]
Maintainer: Michael Zimmermann <mtzimmermann at mcw.edu>
Citation (from within R, enter
citation("RITAN")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RITAN")
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("RITAN")| Choosing Resources | HTML | R Script |
| Enrichment Vignette | HTML | R Script |
| Multi-Tissue Analysis | HTML | R Script |
| Network Biology Vignette | HTML | R Script |
| Relationships Among Resources | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | FunctionalGenomics, GeneSetEnrichment, GraphAndNetwork, Network, NetworkEnrichment, NetworkInference, QualityControl, Software |
| Version | 1.30.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
| License | file LICENSE |
| Depends | R (>= 4.0) |
| Imports | graphics, methods, stats, utils, grid, gridExtra, reshape2, gplots, ggplot2, plotrix, RColorBrewer, STRINGdb, MCL, linkcomm, dynamicTreeCut, gsubfn, hash, png, sqldf, igraph, BgeeDB, knitr, RITANdata, GenomicFeatures, ensembldb, AnnotationFilter, EnsDb.Hsapiens.v86 |
| System Requirements | |
| URL |
See More
| Suggests | rmarkdown, BgeeDB |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | RITAN_1.30.0.tar.gz |
| Windows Binary (x86_64) | RITAN_1.30.0.zip |
| macOS Binary (x86_64) | RITAN_1.30.0.tgz |
| macOS Binary (arm64) | RITAN_1.29.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RITAN |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RITAN |
| Bioc Package Browser | https://code.bioconductor.org/browse/RITAN/ |
| Package Short Url | https://bioconductor.org/packages/RITAN/ |
| Package Downloads Report | Download Stats |