Speaker
Description
Chemical reaction networks (CRNs) are a commonly used model type in biology and chemistry (with applications in e.g. systems biology, pharmacology, and epidemiology). Here, we demonstrate Catalyst.jl, a flexible and feature-filled Julia library for the creation, simulation, and analysis of CRN models. Models can be created both using the Catalyst DSL (which enables the implementation of CRNs in their native reaction format), or built programmatically. Next, they can be simulated using ODE, SDE, and jump process (e.g. Gillespie simulation) approaches. Internally, models are represented symbolically, enabling e.g. automatic symbolic simplifications and Jacobian constructions to improve simulation performance. Finally, Catalyst’s internal CRN model representation enables it to compose with many additional modelling packages. This facilitates features such as steady state computations, bifurcation analysis, identifiability analysis, and parameter fitting.
