BioSimWare is a novel software that provides a user-friendly framework for the modeling and stochastic simulation of complex biological systems, ranging from cellular processes to population phenomena. BioSimWare implements several stochastic algorithms to simulate the dynamics of single or multi-volume models, as well as automatic tools to analyze the effect of variation of the system parameters. BioSimWare supports SBML format, and can automatically convert stochastic models into the corresponding deterministic formulation. The main features of BioSimWare are presented in this paper, together with some applications which highlight the most relevant aspects of the computational tools that it provides.
BioSimWare: a software for the modeling, simulation and analysis of biological systems / D. Besozzi, P. Cazzaniga, G. Mauri, D. Pescini - In: Membrane computing : 11th International Conference, CMC 2010, Jena, Germany, August 24-27, 2010 : revised selected papers / [a cura di] M. Gheorghe, T. Hinze, G. Paun, G. Rozenberg, A. Salomaa. - Berlin : Springer-Verlag, 2010. - ISBN 9783642181221. - pp. 119-143 (( Intervento presentato al 11. convegno International Conference on Membrane Computing tenutosi a Jena, Germany nel 2010 [10.1007/978-3-642-18123-8_12].
BioSimWare: a software for the modeling, simulation and analysis of biological systems
D. BesozziPrimo
;
2010
Abstract
BioSimWare is a novel software that provides a user-friendly framework for the modeling and stochastic simulation of complex biological systems, ranging from cellular processes to population phenomena. BioSimWare implements several stochastic algorithms to simulate the dynamics of single or multi-volume models, as well as automatic tools to analyze the effect of variation of the system parameters. BioSimWare supports SBML format, and can automatically convert stochastic models into the corresponding deterministic formulation. The main features of BioSimWare are presented in this paper, together with some applications which highlight the most relevant aspects of the computational tools that it provides.
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