Computational Model Library

Cooperation is essential for all domains of life. Ironically, it is intrinsically vulnerable to exploitation by cheats. Hence, there is an explanatory necessity that triggers a lot of evolutionary biologists to search for mechanisms that could support cooperation. In general, cooperation can emerge and be maintained when cooperators are sufficiently interacting with themself to provide a kind of assortment and reciprocity. One of the most crucial and common mechanisms to achieve that task are kin selection, spatial structure, and enforcement (punishment). Here I used agent-based simulation models to investigate these pivotal mechanisms against conditional defector strategies and concluded it could easily violate all of them and take over the population. This surprising outcome may cue us to rethink the evolution of cooperation as it illustrates that maintaining cooperation may be more difficult than previously thought. Moreover, besides the theoretical findings, there are empirical applications such as invading the cooperator population of pathogens by genetically engineered conditional defectors, which could be a potential therapy for many incurable diseases.

This NetLogo model simulates trait-based biotic responses to climate change in an environmentally heterogeneous continent in an evolving clade, the species of which are each represented by local populations that disperse and interbreed; they also are subject to selection, genetic drift, and local extirpation. We simulated mammalian herbivores, whose success depends on tooth crown height, vegetation type, precipitation and grit. This model investigates the role of dispersal, selection, extirpation, and other factors contribute to resilience under three climate change scenarios.

Charcoal Record Simulation Model (CharRec)

Grant Snitker | Published Mon Nov 16 14:48:43 2015 | Last modified Thu Sep 30 15:39:55 2021

This model (CharRec) creates simulated charcoal records, based on differing natural and anthropogenic patterns of ignitions, charcoal dispersion, and deposition.


Andrew White | Published Tue Aug 3 16:06:06 2021

Style_Net_01 is a spatial agent-based model designed to serve as a platform for exploring geographic patterns of tool transport and discard among seasonally mobile hunter-gatherer populations. The model has four main levels: artifact, person, group, and system. Persons make, use, and discard artifacts. Persons travel in groups within the geographic space of the model. The movements of groups represent a seasonal pattern of aggregation and dispersal, with all groups coalescing at an aggregation site during one point of the yearly cycle. The scale of group mobility is controlled by a parameter. The creation, use, and discard of artifacts is controlled by several parameters that specify how many tools each person carries in a personal inventory, how many times each tool can be used before it is discarded, and the frequency of tool usage. A lithic source (representing a geographically-specific, recognizable source of stone for tools) can be placed anywhere in the geographic space of the model.


Fulco Scherjon | Published Fri Nov 25 12:00:02 2016 | Last modified Tue Oct 6 11:01:00 2020

A modelling system to simulate Neanderthal demography and distribution in a reconstructed Western Europe for the late Middle Paleolithic.

Cultural Spread

Salvador Pardo-Gordó Salvador Pardo Gordó | Published Thu Apr 2 11:44:34 2015 | Last modified Thu Apr 23 11:41:45 2020

The purpose of the model is to simulate the cultural hitchhiking hypothesis to explore how neutral cultural traits linked with advantageous traits spread together over time

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.

Varying effects of connectivity and dispersal on interacting species dynamics

Kehinde Salau | Published Mon Aug 29 08:01:17 2011 | Last modified Sat Apr 27 20:18:53 2013

An agent-based model of species interaction on fragmented landscape is developed to address the question, how do population levels of predators and prey react with respect to changes in the patch connectivity as well as changes in the sharpness of threshold dispersal?

Population Control

David Shanafelt | Published Mon Dec 13 15:53:14 2010 | Last modified Sat Apr 27 20:18:43 2013

This model looks at the effects of a “control” on agent populations. Much like farmers spraying pesticides/herbicides to manage pest populations, the user sets a control management regiment to be use

The role of spatial foresight in models of hominin dispersal

Colin Wren | Published Mon Feb 24 20:36:57 2014 | Last modified Mon Jul 14 13:31:31 2014

The natural selection of foresight, an accuracy at assess the environment, under degrees of environmental heterogeneity. The model is designed to connect local scale mobility, from foraging, with the global scale phenomenon of population dispersal.

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