RCy3
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see RCy3.
Display and manipulate graphs in Cytoscape >= 3.3.0
Bioconductor version: 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>
citation("RCy3")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RCy3")
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("RCy3")| RCy3 Overview | R Script | |
| Reference Manual | ||
| README | Text | |
| NEWS | Text |
Details
| biocViews | GraphAndNetwork, Network, Software, ThirdPartyClient, Visualization |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (8.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.2), graph(>= 1.48.0) |
| Imports | httr, methods, RCurl, RJSONIO |
| System Requirements | Cytoscape (>= 3.3.0), CyREST (>= 3.3.7), Java (>=8) |
| URL | https://github.com/tmuetze/Bioconductor_RCy3_the_new_RCytoscape |
| Bug Reports | https://github.com/tmuetze/Bioconductor_RCy3_the_new_RCytoscape/issues |
See More
| Suggests | BiocGenerics, RUnit, knitr, igraph, RColorBrewer, paxtoolsr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | categoryCompare, NCIgraph |
| Suggests Me | graphite |
| Links To Me | |
| Build Report | 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 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RCy3 |
| Package Short Url | https://bioconductor.org/packages/RCy3/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |