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 171 results for "Katja Perez Guzman" clear search

Walk Away in groups

Athena Aktipis | Published Thursday, March 17, 2016

This NetLogo model implements the Walk Away strategy in a spatial public goods game, where individuals have the ability to leave groups with insufficient levels of cooperation.

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.

NeoCOOP is an iteration-based ABM that uses Reinforcement Learning and Artificial Evolution as adaptive-mechanisms to simulate the emergence of resource trading beliefs among Neolithic-inspired households.

Peer reviewed Family Herd Demography

Mark Moritz Ian M Hamilton Andrew Yoak Rebecca Garabed Abigail Buffington | Published Monday, August 15, 2016 | Last modified Saturday, January 06, 2018

The model examines the dynamics of herd growth in African pastoral systems. We used it to examine the role of scale (herd size) stochasticity (in mortality, fertility, and offtake) on herd growth.

STiMUS (Stigmergic–Mutualistic IMOI Model) is an agent-based model of teamwork in socio-technical systems where contributors collaborate through shared digital artefacts — wiki pages, code files, issue tickets, project cards, Scratch projects — represented as patches in a NetLogo world. The model integrates two coordination mechanisms. Stigmergy is indirect coordination through traces left in a shared environment: each edit deposits a pheromone that diffuses to neighbouring patches and evaporates over time, so recent activity attracts further contributions. Mutualism is a reciprocal benefit loop in which valuable, well-maintained artefacts raise contributor motivation and shared understanding, while motivated contributors improve artefacts.

Contributors (turtles of the contributor breed) carry individual state: skill, motivation, shared-mental-model, specialty, benefit-gain, and an explicit-mode flag. At each tick every contributor selects a target artefact with an ant-colony-optimization-style rule weighing the artefact’s pheromone, incompleteness (1 - completeness), resource-value, and topic match between specialty and the artefact’s topic-tag; with probability p-explicit it instead takes the patch with the highest maintenance-need, modelling explicit task assignment. Each edit increases pheromone, quality, completeness and reuse-count, raises resource-value, lowers maintenance-need, and appends the editor to the artefact’s edit-authors list. When the previous last-editor-id differs from the current editor, the Edit Succession Ratio rises, the editor’s shared-mental-model grows, and a co-editing link is created — operationalising the idea that repeated cross-author succession on the same artefact builds shared understanding. Contributors’ motivation is updated from the benefit drawn from the visited artefact.

Each patch maintains a stigmergic layer (pheromone, quality, completeness, recentness, last-editor-id, edit-count, edit-authors) and a mutualistic layer (resource-value, reuse-count, maintenance-need, topic-tag), plus task flags (is-task?, task-complexity). Global monitors report the Edit Succession Ratio (ESR = cross-author-edits / total-edits, and an alternative esr-value = share of edited patches with more than one distinct author), mean-quality, mean-resource-value, a mutualism-index averaging contributor benefit and resource value, coediting-density (network density of the co-editing graph), active-pages-share, and task-completion-rate. The model logs every edit as a bipartite edge (tick, author_id, pageid, specialty, topic_tag, quality), exportable to CSV.

This model is based on the Narragansett Bay, RI recreational fishery. The two types of agents are piscivorous fish and fishers (shore and boat fishers are separate “breeds”). Each time step represents one week. Open season is weeks 1-26, assuming fishing occurs during half the year. At each weekly time step, fish agents grow, reproduce, and die. Fisher agents decide whether or not to fish based on their current satisfaction level, and those that do go fishing attempt to catch a fish. If they are successful, they decide whether to keep or release the fish. In our publication, this model was linked to an Ecopath with Ecosim food web model where the commercial harvest of forage fish affected the biomass of piscivorous fish - which then became the starting number of piscivorous fish for this ABM. The number of fish caught in a season of this ABM was converted to a fishing pressure and input back into the food web model.

This purpose of this model is to understand how the coupled demographic dynamics of herds and households constrain the growth of livestock populations in pastoral systems.

FlowLogo for a real case study

Vahid Aghaie | Published Monday, May 18, 2020

Juan Castilla-Rho et al. (2015) developed a platform, named FLowLogo, which integrates a 2D, finite-difference solution of the governing equations of groundwater flow with agent-based simulation. We used this model for Rafsanjan Aquifer, which is located in an arid region in Iran. To use FLowLogo for a real case study, one needs to add GIS shapefiles of boundary conditions and modify the code written in NetLogo a little bit. The FlowLogo model used in our research is presented here.

The MML is a hybrid modeling environment that couples an agent-based model of small-holder agropastoral households and a cellular landscape evolution model that simulates changes in erosion/deposition, soils, and vegetation.

Peer reviewed Dynamic Value-based Cognitive Architectures

Bart de Bruin | Published Tuesday, November 30, 2021

The intention of this model is to create an universal basis on how to model change in value prioritizations within social simulation. This model illustrates the designing of heterogeneous populations within agent-based social simulations by equipping agents with Dynamic Value-based Cognitive Architectures (DVCA-model). The DVCA-model uses the psychological theories on values by Schwartz (2012) and character traits by McCrae and Costa (2008) to create an unique trait- and value prioritization system for each individual. Furthermore, the DVCA-model simulates the impact of both social persuasion and life-events (e.g. information, experience) on the value systems of individuals by introducing the innovative concept of perception thermometers. Perception thermometers, controlled by the character traits, operate as buffers between the internal value prioritizations of agents and their external interactions. By introducing the concept of perception thermometers, the DVCA-model allows to study the dynamics of individual value prioritizations under a variety of internal and external perturbations over extensive time periods. Possible applications are the use of the DVCA-model within artificial sociality, opinion dynamics, social learning modelling, behavior selection algorithms and social-economic modelling.

Displaying 10 of 171 results for "Katja Perez Guzman" clear search

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