eSTGt: a programming and simulation environment for population dynamics

摘要

BackgroundWe have previously presented a formal language for describing population dynamics based on environment-dependent Stochastic Tree Grammars (eSTG). The language captures in broad terms the effect of the changing environment while abstracting away details on interaction among individuals. An eSTG program consists of a set of stochastic tree grammar transition rules that are context-free. Transition rule probabilities and rates, however, can depend on global parameters such as population size, generation count and elapsed time. In addition, each individual may have an internal state, which can change during transitions.