Section: Software

HSIM

Participant : Patrick Amar [correspondant] .

Hsim is a simulation tool for studying the dynamics of biochemical processes in a virtual bacteria. The model is given using a language based on probabilistic rewriting rules that mimics the reactions between biochemical species. Hsim is a stochastic automaton which implements an entity-centered model of objects. This kind of modelling approach is an attractive alternative to differential equations for studying the diffusion and interaction of the many different enzymes and metabolites in cells which may be present in either small or large numbers. This software is freely available at http://www.lri.fr/~pa/Hsim ; A compiled version is available for the Windows, Linux and MacOSX operating systems.