RCX

DOI: 10.18129/B9.bioc.RCX  

R package implementing the Cytoscape Exchange (CX) format

Bioconductor version: Release (3.17)

Create, handle, validate, visualize and convert networks in the Cytoscape exchange (CX) format to standard data types and objects. The package also provides conversion to and from objects of iGraph and graphNEL. The CX format is also used by the NDEx platform, a online commons for biological networks, and the network visualization software Cytocape.

Author: Florian Auer [aut, cre]

Maintainer: Florian Auer <florian.auer at informatik.uni-augsburg.de>

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("RCX")

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("RCX")

 

HTML	R Script	01. RCX - an R package implementing the Cytoscape Exchange (CX) format
HTML	R Script	02. Creating RCX from scratch
HTML	R Script	03. Extending the RCX Data Model
HTML	R Script	Appendix: The RCX and CX Data Model
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DataImport, Network, Pathways, Software
Version	1.4.0
In Bioconductor since	BioC 3.15 (R-4.2) (1.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.2.0)
Imports	jsonlite, plyr, igraph, methods
LinkingTo
Suggests	BiocStyle, testthat, knitr, rmarkdown, base64enc, graph
SystemRequirements
Enhances
URL	https://github.com/frankkramer-lab/RCX
BugReports	https://github.com/frankkramer-lab/RCX/issues
Depends On Me	ndexr
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	RCX_1.4.0.tar.gz
Windows Binary	RCX_1.4.0.zip
macOS Binary (x86_64)	RCX_1.4.0.tgz
macOS Binary (arm64)	RCX_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RCX
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RCX
Bioc Package Browser	https://code.bioconductor.org/browse/RCX/
Package Short Url	https://bioconductor.org/packages/RCX/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive