[6]. An SBML model can be interpreted in Biocham at three abstraction levels: • the Boolean semantics (asynchronuous Boolean state transitions on the presence/absence of molecule...
To model combinatorial decision problems involving uncertainty and probability, we extend the stochastic constraint programming framework proposed in [Walsh, 2002] along a number ...
Weighted transition systems are defined, parametrized by a commutative monoid of weights. These systems are further understood as coalgebras for functors of a specific form. A gene...
We provide translations between process algebra and systems of chemical reactions. We show that the translations preserve discrete-state (stochastic) and continuous-state (concent...
We present SpiCO, a new modeling and simulation language for systems biology. SpiCO is based on the stochastic π-calculus. It supports higher level modeling via multi-profile con...