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 65 results for "Saeed Harati" clear search

Anthill: A harvester ant colony built from the published science

Adrian Diez Cuadrado | Published Thursday, September 17, 2026 | Last modified Thursday, September 24, 2026

An agent-based model of one colony of the Florida harvester ant, Pogonomyrmex badius, from the day a mated queen lands to the death of the colony. It runs in a web browser and, unchanged, headless in Node for replicate studies.

What the ants do: a claustral queen digs her own shaft and raises the first workers on her reserves; workers dig the nest under local rules, with no ant holding a plan; a one-way, age-based division of labour set by the season of birth, which no shortage reverses; trunk-trail foraging with site fidelity and recruitment; seed storage, opening and germination in the chambers, which is what feeds the larvae; daily weather from the climate normals of the study site, with drought years; nuptial flights after heavy rain; corpse removal; alarm at a disturbance on the foraging ground; and annual nest relocation, in which the store and then the brood are carried along the trail to a new nest the colony digs.

Every value in the model is tagged as measured in this species, borrowed from another ant, or invented, with its source, in a single parameter file. The model is deterministic: one seeded stream per system and a fixed one-minute timestep, so a seed reproduces a run bit for bit in the browser and in Node, which a test pins. A study writes a methods report listing the invented values the results rest on and the acceptance tests the model fails.

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MayaSim: An agent-based model of the ancient Maya social-ecological system

Scott Heckbert | Published Wednesday, July 11, 2012 | Last modified Tuesday, July 02, 2013

MayaSim is an agent-based, cellular automata and network model of the ancient Maya. Biophysical and anthropogenic processes interact to grow a complex social ecological system.

Spatial model of the noisy Prisoner's Dilemma with reward shift

Matus Halas | Published Thursday, March 05, 2015 | Last modified Tuesday, May 29, 2018

Interactions of players embedded in a closed square lattice are determined by distance and overall gains and they lead to shifts of reward payoff between temptation and punishment. A new winner balancing against threats is ultimately discovered.

A modified model of breeding synchrony in colonial birds

James Millington | Published Tuesday, June 26, 2012 | Last modified Saturday, April 27, 2013

This generic individual-based model of a bird colony shows how the influence neighbour’s stress levels synchronize the laying date of neighbours and also of large colonies. The model has been used to demonstrate how this form of simulation model can be recognised as being ‘event-driven’, retaining a history in the patterns produced via simulated events and interactions.

An Agent-Based Model of Collective Action

Hai-Hua Hu | Published Tuesday, August 20, 2013

We provide an agent-based model of collective action, informed by Granovetter (1978) and its replication model by Siegel (2009). We use the model to examine the role of ICTs in collective action under different cultural and political contexts.

The Informational Dynamics of Regime Change

Dominik Klein Johannes Marx | Published Saturday, October 07, 2017 | Last modified Tuesday, January 14, 2020

We model the epistemic dynamics preceding political uprising. Before deciding whether to start protests, agents need to estimate the amount of discontent with the regime. This model simulates the dynamics of group knowledge about general discontent.

This model tests whether local housing supply elasticity governs crash severity inside a single metropolitan housing market. Saiz (2010) established that across US metros, regions constrained by geography and regulation experience deeper boom-bust cycles than flexible ones. That finding is routinely applied downward to neighborhoods and ZIP codes as though the mechanism scaled without qualification.

The empirical record for the Washington DC and Northern Virginia region says it does not. Across 84 ZIP codes, measured supply elasticity ranges from 0.35 to 4.95 with a median of 1.21. The worst single-year price decline between 2007 and 2012 averaged 9.6 percent in constrained ZIP codes and 9.0 percent in flexible ones, a gap that cannot be distinguished from noise. Wide variation in the proposed cause, no meaningful separation in the proposed effect.

The model embeds households, houses and a metro-wide credit condition in the real ZIP geography of the region using three GIS layers and an empirical price panel. Local elasticity governs construction, exactly as theory predicts. Prices are driven by a shared macro drift schedule and, under the credit-amplified mode, by a leverage cycle with a financial accelerator and a deviation penalty. The design question is whether those shared forces are sufficient to override local supply differences at the sub-metropolitan scale.

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Neolithic Spread Model Version 1.0

Sean Bergin Michael Barton Salvador Pardo Gordo Joan Bernabeu Auban | Published Thursday, December 11, 2014 | Last modified Monday, December 31, 2018

This model simulates different spread hypotheses proposed for the introduction of agriculture on the Iberian peninsula. We include three dispersal types: neighborhood, leapfrog, and ideal despotic distribution (IDD).

Riparian forests are one of the most vulnerable ecosystems to the development of biological invasions, therefore limiting their spread is one of the main challenges for conservation. The main factors that explain plant invasions in these ecosystems are the capacity for both short- and long-distance seed dispersion, and the occurrence of suitable habitats that facilitate the establishment of the invasive species. Large floods constitute an abiotic filter for invasion.

This model simulates the spatio-temporal spread of the woody invader Gleditsia. triacanthos in the riparian forest of the National Park Esteros de Farrapos e Islas del Río Uruguay, a riparian system in the coast of the Uruguay river (South America). In this model, we represent different environmental conditions for the development of G. triacanthos, long- and short-distance spread of its fruits, and large floods as the main factor of mortality for fruit and early stages.

Field results show that the distribution pattern of this invasive species is limited by establishment, i.e. it spreads locally through the expansion of small areas, and remotely through new invasion foci. This model recreates this dispersion pattern. We use this model to derive management implications to control the spread of G. triacanthos

Artificial Anasazi is an agent-based model of farming households in the Long House Valley, Arizona, from 800 to 1350 CE. Each household chooses where to farm and settle based on expected harvest, water sources and stored maize, and simulated household counts are compared with the archaeological record.

This release adapts the NetLogo Models Library version (Stonedahl & Wilensky 2010) of Janssen’s (2009) NetLogo replication of the original Ascape model (Dean et al. 2000; Axtell et al. 2002). It contains four configurations in one NetLogo 7.0.4 file, selected with two switches:

  • Both switches off: the baseline, which is the Models Library model with small fixes that make it work as intended (the arable-uplands zone name, the setup base yield, the initial household count, one-tick-lag capacity reporting, and seed control with observation-only instruments).
  • soil-on?: dynamic soil quality that depletes under cultivation and regrows, following Janssen (2010, eq. 4).
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Displaying 10 of 65 results for "Saeed Harati" clear search

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