RCy3

DOI: 10.18129/B9.bioc.RCy3    

Display and manipulate graphs in Cytoscape >= 3.3.0

Bioconductor version: Release (3.6)

Vizualize, analyze and explore graphs, connecting R to Cytoscape (>= 3.3.0).

Author: Tanja Muetze, Georgi Kolishovski, Paul Shannon

Maintainer: Tanja Muetze <tanja.muetze14 at alumni.imperial.ac.uk>, Georgi Kolishovski <g_kolishv at yahoo.com>, Paul Shannon <pshannon at systemsbiology.org>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RCy3")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("RCy3")

 

PDF	R Script	RCy3 Overview
PDF		Reference Manual
Text		README
Text		NEWS

Details

biocViews	GraphAndNetwork, Network, Software, ThirdPartyClient, Visualization
Version	1.8.0
In Bioconductor since	BioC 3.2 (R-3.2) (2.5 years)
License	Artistic-2.0
Depends	R (>= 3.2), graph(>= 1.48.0)
Imports	httr, methods, RCurl, RJSONIO
LinkingTo
Suggests	BiocGenerics, RUnit, knitr, igraph, RColorBrewer, paxtoolsr, rmarkdown
SystemRequirements	Cytoscape (>= 3.3.0), CyREST (>= 3.3.7), Java (>=8)
Enhances
URL	https://github.com/tmuetze/Bioconductor_RCy3_the_new_RCytoscape
BugReports	https://github.com/tmuetze/Bioconductor_RCy3_the_new_RCytoscape/issues
Depends On Me
Imports Me	categoryCompare, NCIgraph
Suggests Me	graphite
Build Report

Package Archives

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

Source Package	RCy3_1.8.0.tar.gz
Windows Binary	RCy3_1.8.0.zip
Mac OS X 10.11 (El Capitan)	RCy3_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RCy3
Package Short Url	http://bioconductor.org/packages/RCy3/
Package Downloads Report	Download Stats