RITAN

DOI: 10.18129/B9.bioc.RITAN    

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

Rapid Integration of Term Annotation and Network resources

Bioconductor version: 3.15

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>

Installation

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

 

HTML	R Script	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
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	FunctionalGenomics, GeneSetEnrichment, GraphAndNetwork, Network, NetworkEnrichment, NetworkInference, QualityControl, Software
Version	1.20.0
In Bioconductor since	BioC 3.5 (R-3.4) (5.5 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
LinkingTo
Suggests	rmarkdown, BgeeDB
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	RITAN_1.20.0.tar.gz
Windows Binary	RITAN_1.20.0.zip
macOS Binary (x86_64)	RITAN_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RITAN
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RITAN
Package Short Url	https://bioconductor.org/packages/RITAN/
Package Downloads Report	Download Stats