LibSBMLSim: a reference implementation of fully functional SBML simulator | Zendy

Hiromu Takizawa | Zendy; Kazushige Nakamura | Zendy; Akito Tabira | Zendy; Yoichi Chikahara | Zendy; Tatsuhiro Matsui | Zendy; Noriko Hiroi | Zendy; Akira Funahashi | Zendy

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LibSBMLSim: a reference implementation of fully functional SBML simulator

Author(s) -

Hiromu Takizawa,

Kazushige Nakamura,

Akito Tabira,

Yoichi Chikahara,

Tatsuhiro Matsui,

Noriko Hiroi,

Akira Funahashi

Publication year - 2013

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btt157

Subject(s) - sbml , computer science , markup language , programming language , python (programming language) , ode , trinomial , integrator , software , operating system , xml , mathematics , computer network , bandwidth (computing) , discrete mathematics

The Systems Biology Markup Language (SBML) is currently supported by >230 software tools, among which 160 support numerical integration of ordinary differential equation (ODE) models. Although SBML is a widely accepted standard within this field, there is still no language-neutral library that supports all features of SBML for simulating ODE models. Therefore, a demand exists for a simple portable implementation of a numerical integrator that supports SBML to enhance the development of a computational platform for systems biology.

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