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RITAN

This is the development version of RITAN; for the stable release version, see RITAN.

Rapid Integration of Term Annotation and Network resources


Bioconductor version: Development (3.19)

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")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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, GraphAndNetwork, Network, NetworkEnrichment, NetworkInference, QualityControl, Software
Version 1.27.0
In Bioconductor since BioC 3.5 (R-3.4) (7 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_1.27.0.tar.gz
Windows Binary RITAN_1.27.0.zip (64-bit only)
macOS Binary (x86_64) RITAN_1.27.0.tgz
macOS Binary (arm64) RITAN_1.27.0.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