RCX

DOI: 10.18129/B9.bioc.RCX    

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

R package implementing the Cytoscape Exchange (CX) format

Bioconductor version: Development (3.16)

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>

Citation (from within R, enter citation("RCX")):

Installation

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

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

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

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 1.1.0
In Bioconductor since BioC 3.15 (R-4.2) (< 6 months)
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_1.1.0.tar.gz
Windows Binary RCX_1.1.0.zip
macOS 10.13 (High Sierra) RCX_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/RCX
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RCX
Package Short Url https://bioconductor.org/packages/RCX/
Package Downloads Report Download Stats

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