AgentBasedModeling.jl: a tool for stochastic simulation of structured population dynamics

2024/09/28 by Piho, Paul, Thomas, Philipp
#FOS: Biological sciences #Molecular Networks (q-bio.MN) #Populations and Evolution (q-bio.PE)

paper · doi:10.48550/arxiv.2409.19294

Abstract

Agent-based models capture heterogeneity among individuals in a population and are widely used in studies of multi-cellular systems, disease, epidemics and demography to name a few. However, existing frameworks consider discrete time-step simulation or assume that agents' states only change as a result of discrete events. In this note, we present AgentBasedModeling.jl, a Julia package for simulating stochastic agent-based population models in continuous time. The tool allows to easily specify and simulate agents evolving through generic continuous-time jump-diffusions and interacting via continuous-rate processes. AgentBasedModeling.jl provides a powerful methodology for studying the effects of stochasticity on structured population dynamics.

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