This model is a spatial evolutionary game theory model in which animals with inherited red or blue phenotypes move, interact locally, gain or lose energy based on payoff structure, and reproduce across generations. Plants provide a stationary green component of the environment. The model can be used to examine how game payoffs, inheritance, and survival shape population and evolutionary dynamics over time.

MIOvPOPsurveillance is set up to simulate harvest-based chronic wasting disease (CWD) surveillance of white-tailed deer (Odocoileus virginianus) populations in select Michigan Counties. New regions can be readily added, also the model can be readily adapted for other disease systems and used for informed-decision making during planning and implementation stages of disease surveillance in wildlife and free-ranging species.

Contains python3 code used to replicate the culture model from the JASSS submission: “Modeling Cultural Dissemination and Divergence between Rural and Urban Regions.”

A model of innovation diffusion in a structured population with two groups who are averse to adopting a produce popular with the outgroup.

We combine a model of parties adjusting their position to recruit voters, and voters adjusting their opinions due to social influence and party positions.

The code shared here accompanies the paper at https://doi.org/10.1371/journal.pone.0208451. It simulates the effects of various economic trade scenarios on the phenomenon of the ‘disappearing middle’ in the Scottish beef and dairy farming industries. The ‘disappearing middle’ is a situation in which there is a simultaneous observed decline in medium-sized enterprises and rise in the number of small and large-scale enterprises.

BarterNet is a platform for modeling early barter networks with the aim of learning how supply and demand for a good determine if traders will learn to use that good as a form of money. Traders use a good as money when they offer to trade for it even if they can’t consume it, but believe that they can subsequently trade it for a good they can consume in the near future.

The spatially-explicit AgriculTuralLandscApe Simulator (ATLAS) simulates realistic spatial-temporal crop availability at the landscape scale through crop rotations and crop phenology.

GenoScope is a modular agent-based model designed to simulate how cells respond to environmental stressors or other treatment conditions across species. Genes, treatment conditions, and cell physiology outcomes are represented as interacting agents that influence each other’s behavior over time. Rather than imposing fixed interaction rules, GenoScope initializes with randomized regulatory logic and calibrates rule sets based on empirical data. Calibration is grounded in a common-garden experiment involving 16 mammalian species—including humans, dolphins, bats, and camels—exposed to varying levels of temperature, glucose, and oxygen. This comparative approach enables the identification of mechanisms by which animal cells achieve robustness under extreme environmental conditions.

Aroused public opinion has led to public debates on social responsibility issues in food supply chains. This model based op opinion dynamics and the linkages between involved actors simulates the public debate leading to the transitions.