Simulation
From BioUML platform
Revision as of 11:14, 4 June 2013 by Tagir Valeev (Talk | contribs)
Currently, BioUMl contains next simulation engines:
- ODE Simulation Engine
- Stochastic Simulation Engine
- Agent-based Simulation Engine
ODE Simulation Engine
Generates ODE system with descrete events. Along with the initial model state it constitutes Initial Value Problem (IVP) which can be solved with appropriate methods implemented in BioUML:
It is also applicable for modular models created in BioUML and satisfying certain limitations on modules. In that case flattening algorithm is applied before simulation.
Stochastic Simulation Engine
Interpretes chemical reactions in the model as stochastic processes. Generated code implements interface for stochastic solvers:
Agent-based Simualtion Engine
Is applicable for modular models regardless modules implementation. Each module is simulated with its own simulation engine, scheduler provides their intercommunications.
