libRoadRunner specifications

Information


Unique identifier OMICS_09368
Name libRoadRunner
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, C++, Python
License Apache License version 2.0
Computer skills Advanced
Version 1.3.2
Stability Stable
Maintained Yes

Versioning


Add your version

Maintainer


  • person_outline Endre T. Somogyi <>

Publication for libRoadRunner

libRoadRunner in publications

 (5)
PMCID: 5322748
PMID: 28096317
DOI: 10.1042/BSR20160177

[…] challenge of multi-scale modelling. sütterlin et al. [] developed a novel software workflow (episim) for the semantic integration of sbml-encased models. more recently, somogyi et al. [] developed libroadrunner – a python-based application which supports large-scale problems for sbml-encoded models, including multi-module modelling. continued progress of this nature in the field […]

PMCID: 5264012
PMID: 28112150
DOI: 10.1038/ncomms13929

[…] fields and diffusion equations. macroscopic cell behaviours are linked to intracellular molecular concentrations simulated using an external systems biology markup language (smbl) library such as libroadrunner; cellsys focuses on multi-agent simulations of tumour growth and lbibcell couples viscoelastic cell mechanics with reaction-advection-diffusion solvers, but neither includes grn […]

PMCID: 5026379
PMID: 27636091
DOI: 10.1371/journal.pone.0162428

[…] sbml and whole body pbpk/sbml models, and transfers quantities between scales. we choose the blood concentration of apap as a scale-insensitive variable to connect the models. we use the libroadrunner [] package, a cross-platform, open-source, high performance c++ library for running sbml-compliant models. libroadrunner’s python api allows the cc3d python script to load the sbml […]

PMCID: 5160922
PMID: 27994963
DOI: 10.7717/peerj.2716

[…] is available in the paper’s github repository., the nutrient transition counter model was drawn in celldesigner (version 4.4) (), serialized as an sbml file, and simulated in python using libroadrunner. the sbml file for the model is available at 10.6084/m9.figshare.3493994. a detailed report of the chemical reactions and rate parameters was generated by sbml2 () and is available […]

PMCID: 4259112
PMID: 25538939
DOI: 10.3389/fbioe.2014.00061

[…] libsbmlsim (takizawa et al., ) supports even more recent versions of sbml, explicit and implicit integration methods, and bindings to several programing languages. another alternative is libroadrunner, a highly performant c++ library for the simulation of sbml models, which provides automatically generated language-bindings to python (sauro et al., )., the java-based tool jsim […]


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

libRoadRunner institution(s)
Biocomplexity Institute and Department of Physics, Indiana University, Bloomington, IN, USA; Biomedical Engineering Department, University of Southern California, Los Angeles, CA, USA; Department of Computational Systems Biochemistry, University Medicine Charité Berlin, Berlin, Germany; Department of Bioengineering, University of Washington, Seattle, WA, USA

libRoadRunner reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review libRoadRunner