RITAN

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see RITAN.

Rapid Integration of Term Annotation and Network resources


Bioconductor version: 3.10

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

Maintainer: Michael Zimmermann <mtzimmermann at mcw.edu>

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

Installation

To install this package, start R (version "3.6") 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 PDF
NEWS Text
LICENSE Text

Details

biocViews FunctionalGenomics, GeneSetEnrichment, Network, NetworkEnrichment, NetworkInference, QualityControl, Software
Version 1.10.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License file LICENSE
Depends R (>= 3.4)
Imports graphics, stats, utils, grid, gridExtra, reshape2, gplots, ggplot2, plotrix, RColorBrewer, STRINGdb, MCL, linkcomm, dynamicTreeCut, sqldf, gsubfn, hash, png, sqldf, igraph, BgeeDB, knitr, RITANdata
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Suggests rmarkdown
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Build Report Build Report

Package Archives

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

Source Package RITAN_1.10.0.tar.gz
Windows Binary RITAN_1.10.0.zip
Mac OS X 10.11 (El Capitan) RITAN_1.10.0.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
Old Source Packages for BioC 3.10 Source Archive