rBiopaxParser statistics

Tool stats & trends

Looking to identify usage trends or leading experts?


rBiopaxParser specifications


Unique identifier OMICS_05211
Name rBiopaxParser
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.20.0
Stability Stable
BiocGenerics, RUnit, data.table, R(>=3.0.0), graph, RBGL, RCurl, Rgraphviz, igraph, XML, nem
Maintained Yes


No version available


Publication for rBiopaxParser

rBiopaxParser citations


Building pathway graphs from BioPAX data in R

PMCID: 5130076
PMID: 27990265
DOI: 10.5256/f1000research.10320.r17096

[…] Software available from: The function pathway2Graph is available in the latest version of the R package rBiopaxParser and can be installed from Bioconductor. Latest source code: https://github.com/frankkramer-lab/rBiopaxParser/tree/2.12.0 Archived source code as at the time of publication: http://dx.do […]


Newly Constructed Network Models of Different WNT Signaling Cascades Applied to Breast Cancer Expression Data

PLoS One
PMCID: 4669165
PMID: 26632845
DOI: 10.1371/journal.pone.0144014

[…] s of WNT networks originating from the public microarray expression data and the newly generated RNA-Seq data were investigated for graph overlaps. Therefore, the calcGraphOverlap R-function from the rBiopaxParser R-package was utilized and the modules based on microarray data were used as reference graphs. […]


R Based Software for the Integration of Pathway Data into Bioinformatic Algorithms

PMCID: 4009765
PMID: 24833336
DOI: 10.3390/biology3010085
call_split See protocol

[…] ilar to Cytoscape, especially focused on visualizing extremely large networks. CePa provides preset plotting parameters for its supplied igraph objects. The packages NCIgraph, KEGGgraph, pathview and rBiopaxParser enable the user to plot pathways via Rgraphviz. Package pathview additionally provides a function to export native KEGG representations as PNG image files. The graphite package, which us […]


Looking to check out a full list of citations?

rBiopaxParser institution(s)
Department of Medical Statistics, University Medical Center G├Âttingen, Germany

rBiopaxParser reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review rBiopaxParser