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.

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Peer reviewed STiMUS: A Stigmergic–Mutualistic Agent-Based Model of Teamwork on Shared Digital Artefacts (IMOI)

Yevgeny Patarakin | Published Friday, July 03, 2026 | Last modified Wednesday, July 22, 2026

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 project was developed during the Santa Fe course Introduction to Agent-Based Modeling 2022. The origin is a Cellular Automata (CA) model to simulate human interactions that happen in the real world, from Rubens and Oliveira (2009). These authors used a market research with real people in two different times: one at time zero and the second at time zero plus 4 months (longitudinal market research). They developed an agent-based model whose initial condition was inherited from the results of the first market research response values and evolve it to simulate human interactions with Agent-Based Modeling that led to the values of the second market research, without explicitly imposing rules. Then, compared results of the model with the second market research. The model reached 73.80% accuracy.
In the same way, this project is an Exploratory ABM project that models individuals in a closed society whose behavior depends upon the result of interaction with two neighbors within a radius of interaction, one on the relative “right” and other one on the relative “left”. According to the states (colors) of neighbors, a given cellular automata rule is applied, according to the value set in Chooser. Five states were used here and are defined as levels of quality perception, where red (states 0 and 1) means unhappy, state 3 is neutral and green (states 3 and 4) means happy.
There is also a message passing algorithm in the social network, to analyze the flow and spread of information among nodes. Both the cellular automaton and the message passing algorithms were developed using the Python extension. The model also uses extensions csv and arduino.

This research article presents an agent-based simulation hereinafter called COMMONSIM. It builds on COMMONISM, i.e. a large-scale commons-based vision for a utopian society. In this society, production and distribution of means are not coordinated via markets, exchange, and money, or a central polity, but via bottom-up signalling and polycentric networks, i.e. ex-ante coordination via needs. Heterogeneous agents care for each other in life groups and produce in different groups care, environmental as well as intermediate and final means to satisfy sensual-vital needs. Productive needs decide on the magnitude of activity in groups for a common interest, e.g. the production of means in a multi-sectoral artificial economy. Agents share cultural traits identified by different behaviour: a propensity for egoism, leisure, environmentalism, and productivity. The narrative of this utopian society follows principles of critical psychology and sociology, complexity and evolution, the theory of commons, and critical political economy. The article presents the utopia and an agent-based study of it, with emphasis on culture-dependent allocation mechanisms and their social and economic implications for agents and groups.

This NetLogo model simulates how coral reefs around the islands of Palau would develop under different emission scenarios and with selected adaptation strategies. Reef health is indicated by coral cover (%) and is affected by four major climate change impacts: increasing sea surface temperature, sea level rise, ocean acidification, and more intense typhoons. The model differentiates between inner and outer reefs, with the former naturally adapted to warmer, more acidic waters. The simulation includes bleaching events and possible recovery. In addition, the user can choose between different coral transplantation strategies as well as regulate natural thermal adaptation rates.

This model is programmed in Python 3.6. We model how different consensus protocols and trade network topologies affect the performance of a blockchain system. The model consists of multiple trader and miner agents (Trader.py and Tx.py), and one system agent (System.py). We investigated three consensus protocols, namely proof-of-work (PoW), proof-of-stake (PoS), and delegated proof-of-stake (DPoS). We also examined three common trade network topologies: random, small-world, and scale-free. To reproduce our results, you may need to create some databases using, e.g., MySQL; or read and write some CSV files as model configurations.

This computational model accompanies the article “The Informational Assumptions of Schelling Segregation: An Agent-Based Decomposition of Cue Inference, Cultural Schemas, and Residential Sorting.” It implements an agent-based model in which agents infer latent neighborhood-type classes from noisy non-demographic cues through schema-specific diagnostic mappings, update beliefs, and relocate when satisfaction on a preferred latent class falls below a threshold.

The model serves as a mechanism-isolation device for studying the informational architecture underlying Schelling-style residential sorting. It includes the principal sweep configuration (14,400 runs across a seven-parameter grid), a disagreement-metric sub-sweep with permutation-minimized Jensen-Shannon divergence recorded natively, controls (positive, negative, and frozen-belief), a paired-seed cue-channel perturbation experiment, and selected-cell sensitivity sweeps for cue persistence and home-biased mobility.

The full ODD protocol, parameter manifests, deterministic seed schedules, processed outputs, regenerable figure scripts, the verification test suite, and the satisfaction-mapping audit document are included. Every reported run is deterministic given a (config, seed) pair, and an included audit script verifies bit-for-bit replay on sampled runs.

Schelling famously proposed an extremely simple but highly illustrative social mechanism to understand how strong ethnic segregation could arise in a world where individuals do not necessarily want it. Schelling’s simple computational model is the starting point for our extensions in which we build upon Wilensky’s original NetLogo implementation of this model. Our two NetLogo models can be best studied while reading our chapter “Agent-based Computational Models” (Flache and de Matos Fernandes, 2021). In the chapter, we propose 10 best practices to elucidate how agent-based models are a unique method for providing and analyzing formally precise, and empirically plausible mechanistic explanations of puzzling social phenomena, such as segregation, in the social world. Our chapter addresses in particular analytical sociologists who are new to ABMs.

In the first model (SegregationExtended), we build on Wilensky’s implementation of Schelling’s model which is available in NetLogo library (Wilensky, 1997). We considerably extend this model, allowing in particular to include larger neighborhoods and a population with four groups roughly resembling the ethnic composition of a contemporary large U.S. city. Further features added concern the possibility to include random noise, and the addition of a number of new outcome measures tuned to highlight macro-level implications of the segregation dynamics for different groups in the agent society.

In SegregationDiscreteChoice, we further modify the model incorporating in particular three new features: 1) heterogeneous preferences roughly based on empirical research categorizing agents into low, medium, and highly tolerant within each of the ethnic subgroups of the population, 2) we drop global thresholds (%-similar-wanted) and introduce instead a continuous individual-level single-peaked preference function for agents’ ideal neighborhood composition, and 3) we use a discrete choice model according to which agents probabilistically decide whether to move to a vacant spot or stay in the current spot by comparing the attractiveness of both locations based on the individual preference functions.

The Communication-Based Model of Perceived Descriptive Norm Dynamics in Digital Networks (COMM-PDND) is an agent-based model specifically created to examine the dynamics of perceived descriptive norms in the context of digital network structures. The model, developed as part of a master’s thesis titled “The Dynamics of Perceived Descriptive Norms in Digital Network Publics: An Agent-Based Simulation,” emphasizes the critical role of communication processes in norm formation. It focuses on the role of communicative interactions in shaping perceived descriptive norms.

The COMM-PDND is tuned to explore the effects of normative deviance in digital social networks. It provides functionalities for manipulating agents according to their network position, and has a versatile set of customizable parameters, making it adaptable to a wide range of research contexts.

An empirically calibrated agent-based model of cooperation among 14 EU member states. Adaptive state-agents update their cooperation propensity through behavioural inertia, influence along the observed intra-EU trade network (IMF bilateral flows), and repeated-game payoff indicators built from verified Eurostat, Eurobarometer and IMF data (2021-2024). An anchored logistic mapping makes the observed configuration stationary in the absence of shocks, so outcomes read as deviations from the empirical baseline. The model stress-tests European cooperation to 2040 under five scenarios of increasing severity, from a baseline to a Taiwan Strait crisis counterfactual, with 1,000 Monte Carlo replications and a full sensitivity suite (one-factor-at-a-time, joint parameter sampling, breaking-point analysis, alternative functional form). Documented with the ODD protocol; self-testing and fully reproducible under fixed seeds.

Peer reviewed Virus Transmission with Super-spreaders

J M Applegate | Published Saturday, September 11, 2021

A curious aspect of the Covid-19 pandemic is the clustering of outbreaks. Evidence suggests that 80\% of people who contract the virus are infected by only 19% of infected individuals, and that the majority of infected individuals faile to infect another person. Thus, the dispersion of a contagion, $k$, may be of more use in understanding the spread of Covid-19 than the reproduction number, R0.

The Virus Transmission with Super-spreaders model, written in NetLogo, is an adaptation of the canonical Virus Transmission on a Network model and allows the exploration of various mitigation protocols such as testing and quarantines with both homogenous transmission and heterogenous transmission.

The model consists of a population of individuals arranged in a network, where both population and network degree are tunable. At the start of the simulation, a subset of the population is initially infected. As the model runs, infected individuals will infect neighboring susceptible individuals according to either homogenous or heterogenous transmission, where heterogenous transmission models super-spreaders. In this case, k is described as the percentage of super-spreaders in the population and the differing transmission rates for super-spreaders and non super-spreaders. Infected individuals either recover, at which point they become resistant to infection, or die. Testing regimes cause discovered infected individuals to quarantine for a period of time.

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