rxncon specifications


Unique identifier OMICS_15694
Name rxncon
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes



Add your version



  • person_outline Jesper Romers <>

Publications for rxncon

rxncon in publications

PMCID: 5516868
PMID: 28725459
DOI: 10.1038/npjsba.2015.7

[…] complex is best known for its role in glucose derepression., we performed a network reconstruction of the snf1 pathway based on a comprehensive literature review. the network was formalised in the rxncon language, and we used the rxncon toolbox for model validation and gap filling., we present a machine-readable network definition that summarises the mechanistic knowledge of the snf1 pathway. […]

PMCID: 3588907
PMID: 23423320
DOI: 10.1038/msb.2013.1

[…] but they are not a replacement. this implies that visualizations should be created from an underlying computable representation and not the other way around; this is the approach taken by the rxncon software, which uses specialized tables to describe reactions in a way that specifically supports multiple visualizations (). however, to be most useful, the computable representation must […]

PMCID: 3485121
PMID: 22913808
DOI: 10.1186/1752-0509-6-107

[…] for drawing extended contact maps []. the stencil can be obtained from the bionetgen wiki site ( http://bionetgen.org). a tool for automatic visualization of a rule-based model specification, rxncon, has recently become available []; this tool produces maps that have similarities with an extended contact map. the purpose of an extended contact map is to provide a high-level understandable […]

To access a full list of publications, you will need to upgrade to our premium service.

rxncon institution(s)
Humboldt Universität zu Berlin, Theoretical Biophysics, Berlin, Germany
rxncon funding source(s)
This work was supported by the German Federal Ministry of Education and Research as e:Bio Cellemental (FKZ0316193).

rxncon reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review rxncon