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 214 results for "Luis E. C. Rocha" clear search

BEGET Classic

Kristin Crouse | Published Monday, November 11, 2019 | Last modified Monday, November 25, 2019

BEGET Classic includes previous versions used in the classroom and for publication. Please check out the latest version of B3GET here, which has several user-friendly features such as directly importing and exporting genotype and population files.

The classic versions of B3GET include: version one and version three were used in undergraduate labs at the University of Minnesota to demonstrate principles in primate behavioral ecology; version two first demonstrated proof of concept for creating virtual biological organisms using decision-vector algorithms; version four was presented at the 2017 annual meeting at the American Association of Physical Anthropologists; version five was presented in a 2019 publication from the Journal of Human Evolution (Crouse, Miller, and Wilson, 2019).

Peer reviewed B3GET

Kristin Crouse | Published Thursday, November 14, 2019 | Last modified Tuesday, September 20, 2022

B3GET simulates populations of virtual organisms evolving over generations, whose evolutionary outcomes reflect the selection pressures of their environment. The model simulates several factors considered important in biology, including life history trade-offs, investment in fighting ability and aggression, sperm competition, infanticide, and competition over access to food and mates. Downloaded materials include starting genotype and population files. Edit the these files and see what changes occur in the behavior of virtual populations!

View the B3GET user manual here.

Harvesting daisies in Daisyworld

Marco Janssen | Published Saturday, July 22, 2017

Comparing impact of alternative behavioral theories in a simple social-ecological system.

This multi-model (i.e. a model composed of interacting submodels) is a multi-level representation of a collective motion phenomenon. It was designed to study the impact of the mutual influences between individuals and groups in collective motion.

Peer reviewed MIOvCWD

Aniruddha Belsare | Published Friday, December 13, 2019

MIOvCWD is a spatially-explicit, agent-based model designed to simulate the spread of chronic wasting disease (CWD) in Michigan’s white-tailed deer populations. CWD is an emerging prion disease of North American cervids (white-tailed deer Odocoileus virginianus, mule deer Odocoileus hemionus, and elk Cervus elaphus) that is being actively managed by wildlife agencies in most states and provinces in North America, including Michigan. MIOvCWD incorporates features like deer population structure, social organization and behavior that are particularly useful to simulate CWD dynamics in regional deer populations.

REHAB has been designed as an ice-breaker in courses dealing with ecosystem management and participatory modelling. It helps introducing the two main tools used by the Companion Modelling approach, namely role-playing games and agent-based models.

Exploring Transitions towards Sustainable Construction

Jesus Rosales-Carreon César García-Díaz | Published Wednesday, October 30, 2013 | Last modified Saturday, January 31, 2015

This model illustrates actor interaction in the construction sector, according to information gathered in NL. It offers a simple frame to represent diverse interests, interdependencies and effects on the number of built sustainable houses.

Peer reviewed AgentEx

Nanda Wijermans Maja Schlüter Caroline Schill Therese Lindahl | Published Sunday, November 13, 2016

AgentEx aims to advance understanding of group processes for sustainable management of a common pool resource (CPR). By supporting the development and test explanations of cooperation and sustainable exploitation.

Peer reviewed soslivestock model

Marco Janssen Irene Perez Ibarra Diego J. Soler-Navarro Alicia Tenza Peral | Published Wednesday, May 28, 2025 | Last modified Tuesday, June 10, 2025

The purpose of this model is to analyze how different management strategies affect the wellbeing, sustainability and resilience of an extensive livestock system under scenarios of climate change and landscape configurations. For this purpose, it simulates one cattle farming system, in which agents (cattle) move through the space using resources (grass). Three farmer profiles are considered: 1) a subsistence farmer that emphasizes self-sufficiency and low costs with limited attention to herd management practices, 2) a commercial farmer focused on profit maximization through efficient production methods, and 3) an environmental farmer that prioritizes conservation of natural resources and animal welfare over profit maximization. These three farmer profiles share the same management strategies to adapt to climate and resource conditions, but differ in their goals and decision-making criteria for when, how, and whether to implement those strategies. This model is based on the SequiaBasalto model (Dieguez Cameroni et al. 2012, 2014, Bommel et al. 2014 and Morales et al. 2015), replicated in NetLogo by Soler-Navarro et al. (2023).

One year is 368 days. Seasons change every 92 days. Each step begins with the growth of grass as a function of climate and season. This is followed by updating the live weight of animals according to the grass height of their patch, and grass consumption, which is determined based on the updated live weight. Animals can be supplemented by the farmer in case of severe drought. After consumption, cows grow and reproduce, and a new grass height is calculated. This updated grass height value becomes the starting grass height for the next day. Cows then move to the next area with the highest grass height. After that, cattle prices are updated and cattle sales are held on the first day of fall. In the event of a severe drought, special sales are held. Finally, at the end of the day, the farm balance and the farmer’s effort are calculated.

We present an agent-based model that maps out and simulates the processes by which individuals within ecological restoration organizations communicate and collectively make restoration decisions.

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