BioDiVinE: A Framework for Parallel Analysis of Biological Models

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Authors	BARNAT Jiří BRIM Luboš ČERNÁ Ivana DRAŽAN Sven FABRIKOVÁ Jana LÁNÍK Jan ŠAFRÁNEK David HONGWU Ma
Year of publication	2009
Type	Article in Proceedings
Conference	Proceedings of 2nd International Workshop on Computational Models for Cell Processes
MU Faculty or unit	Faculty of Informatics
Citation
Field	Informatics
Keywords	model checking; multi-affine systems; dynamic systems; rectangular abstraction
Description	In this paper a novel tool BioDiVinE for parallel analysis of biological models is presented. The tool allows analysis of biological models specified in terms of a set of chemical reactions. Chemical reactions are transformed into a system of multi-affine differential equations. BioDiVinE employs techniques for finite discrete abstraction of the continuous state space. At that level, parallel analysis algorithms based on model checking are provided. In the paper, the key tool features are described and their application is demonstrated by means of a case study.
Related projects:	Techniques for automatic verification and validation of software nad hardware systems Highly Parallel and Distributed Computing Systems Verification and Analysis of Large-Scale Computer Systems Automated formal verification using modern hardware