The goal of this project was to create software to model Cell-Like Entities, and to perform initial simulations. A software package was written in Matlab that performs stochastic simulations using a Gillespie-based algorithm of biomolecular networks. Biochemical processes that can be modeled include binding, unbinding, transcription, translation, Michaelis-Menten, and n-th order processes. Models and parameters are defined using several text files. The software package was designed to enable simple porting ...
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