Modern mathematical biology requires moving seamlessly from model construction to highly optimized simulation and deep mathematical analysis. In this first of two sessions, we introduce Catalyst.jl, a domain-specific language and symbolic modeling platform within the Julia SciML ecosystem designed for the rapid, intuitive modeling of complex biological networks. With a special focus on the...
In this second part of the session on Catalyst.jl, we focus on inverse problems, i.e. estimating parameters in models via fitting to data. Using Catalyst models as examples, we will demonstrate how Julia packages can be composed to generate complete model fitting pipelines.
First, we will show how structural identifiability can be assessed for any model using StructuralIdentifiability.jl....
This workshop introduces Catalyst.jl, a feature-rich Julia library for modeling chemical reaction networks (CRNs) arising in epidemiology, systems biology, ecology, and beyond. In Catalyst, symbolic reaction systems can be constructed using chemical reaction notation or generated programmatically, and can be coupled to non-reaction ODEs, algebraic equations, and events. Catalyst models...
