Computational Model Library

Our mission is to help computational modelers develop, document, and share their computational models in accordance with community standards and good open science and software engineering practices. Model authors can publish their model source code in the Computational Model Library with narrative documentation as well as metadata that supports open science and emerging norms that facilitate software citation, computational reproducibility / frictionless reuse, and interoperability. Model authors can also request private peer review of their computational models. Models that pass peer review receive a DOI once published.

All users of models published in the library must cite model authors when they use and benefit from their code.

Please check out our model publishing tutorial and feel free to contact us if you have any questions or concerns about publishing your model(s) in the Computational Model Library.

Displaying 10 of 12 results natural selection clear search

A simple model illustrating RA Fisher’s (1930) reconciliation of Darwinian selection with particulate genetic contributions.

00b SimEvo_V5.08 NetLogo

Garvin Boyle | Published Saturday, October 05, 2019

In 1985 Dr Michael Palmiter, a high school teacher, first built a very innovative agent-based model called “Simulated Evolution” which he used for teaching the dynamics of evolution. In his model, students can see the visual effects of evolution as it proceeds right in front of their eyes. Using his schema, small linear changes in the agent’s genotype have an exponential effect on the agent’s phenotype. Natural selection therefore happens quickly and effectively. I have used his approach to managing the evolution of competing agents in a variety of models that I have used to study the fundamental dynamics of sustainable economic systems. For example, here is a brief list of some of my models that use “Palmiter Genes”:
- ModEco - Palmiter genes are used to encode negotiation strategies for setting prices;
- PSoup - Palmiter genes are used to control both motion and metabolic evolution;
- TpLab - Palmiter genes are used to study the evolution of belief systems;
- EffLab - Palmiter genes are used to study Jevon’s Paradox, EROI and other things.

Previous work with the spatial iterated prisoner’s dilemma has shown that “walk away” cooperators are able to outcompete defectors as well as cooperators that do not respond to defection, but it remains to be seen just how robust the so-called walk away strategy is to ecologically important variables such as population density, error, and offspring dispersal. Our simulation experiments identify socio-ecological conditions in which natural selection favors strategies that emphasize forgiveness over flight in the spatial iterated prisoner’s dilemma. Our interesting results are best explained by considering how population density, error, and offspring dispersal affect the opportunity cost associated with walking away from an error-prone partner.

Peer reviewed Population Genetics

Kristin Crouse | Published Thursday, February 08, 2018 | Last modified Wednesday, September 09, 2020

This model simulates the mechanisms of evolution, or how allele frequencies change in a population over time.

Peer reviewed Dawkins Weasel

Kristin Crouse | Published Thursday, February 08, 2018 | Last modified Wednesday, January 28, 2026

Dawkins’ Weasel is a NetLogo model that illustrates the principle of evolution by natural selection. It is inspired by a thought experiment presented by Richard Dawkins in his book The Blind Watchmaker (1996).

Our societal belief systems are pruned by evolution, informing our unsustainable economies. This is one of a series of models exploring the dynamics of sustainable economics – PSoup, ModEco, EiLab, OamLab, MppLab, TpLab, CmLab.

Using webs of replicas of Atwood’s Machine, we explore implications of the Maximum Power Principle. This is one of a series of models exploring the dynamics of sustainable economics – PSoup, ModEco, EiLab, OamLab, MppLab, TpLab, CmLab.

A spatial model of resource-consumer dynamics

Arend Ligtenberg Guus Ten Broeke George Ak Van Voorn Jaap Molenaar | Published Wednesday, January 11, 2017 | Last modified Thursday, September 17, 2020

The model simulates agents in a spatial environment competing for a common resource that grows on patches. The resource is converted to energy, which is needed for performing actions and for surviving.

This model illustrates how the effective population size and the rate of change in mean skill level of a cultural trait are affected by the presence of natural selection and/or the cultural transmission mechanism by which it is passed.

02 OamLab V1.10 - Open Atwood Machine Laboratory

Garvin Boyle | Published Saturday, January 31, 2015 | Last modified Thursday, April 13, 2017

Using chains of replicas of Atwood’s Machine, this model explores implications of the Maximum Power Principle. It is one of a series of models exploring the dynamics of sustainable economics – PSoup, ModEco, EiLab, OamLab, MppLab, TpLab, EiLab.

Displaying 10 of 12 results natural selection clear search

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