Computational Model Library

BEGET Classic

Kristin Crouse | Published Mon Nov 11 07:30:59 2019 | Last modified Mon Nov 25 07:25:33 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 technology; 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).

The purpose of the model is to collect information on human decision-making in the context of coalition formation games. The model uses a human-in-the-loop approach, and a single human is involved in each trial. All other agents are controlled by the ABMSCORE algorithm (Vernon-Bido and Collins 2020), which is an extension of the algorithm created by Collins and Frydenlund (2018). The glove game, a standard cooperative game, is used as the model scenario.

The intent of the game is to collection information on the human players behavior and how that compares to the computerized agents behavior. The final coalition structure of the game is compared to an ideal output (the core of the games).

This work is a java implementation of a study of the viability of a population submitted to floods. The population derives some benefit from living in a certain environment. However, in this environment, floods can occur and cause damage. An individual protection measure can be adopted by those who wish and have the means to do so. The protection measure reduces the damage in case of a flood. However, the effectiveness of this measure deteriorates over time. Individual motivation to adopt this measure is boosted by the occurrence of a flood. Moreover, the public authorities can encourage the population to adopt this measure by carrying out information campaigns, but this comes at a cost. People’s decisions are modelled based on the Protection Motivation Theory (Rogers1975, Rogers 1997, Maddux1983) arguing that the motivation to protect themselves depends on their perception of risk, their capacity to cope with risk and their socio-demographic characteristics.
While the control designing proper informations campaigns to remain viable every time is computed in the work presented in https://www.comses.net/codebases/e5c17b1f-0121-4461-9ae2-919b6fe27cc4/releases/1.0.0/, the aim of the present work is to produce maps of probable viability in case the serie of upcoming floods is unknown as well as much of the parameters for the population dynamics. These maps are bi-dimensional, based on the value of known parameters: the current average wealth of the population and their actual or possible future annual revenues.

This model is an agent-based simulation written in Python 2.7, which simulates the cost of social care in an ageing UK population. The simulation incorporates processes of population change which affect the demand for and supply of social care, including health status, partnership formation, fertility and mortality. Fertility and mortality rates are drawn from UK population data, then projected forward to 2050 using the methods developed by Lee and Carter 1992.

The model demonstrates that rising life expectancy combined with lower birthrates leads to growing social care costs across the population. More surprisingly, the model shows that the oft-proposed intervention of raising the retirement age has limited utility; some reductions in costs are attained initially, but these reductions taper off beyond age 70. Subsequent work has enhanced and extended this model by adding more detail to agent behaviours and familial relationships.

The version of the model provided here produces outputs in a format compatible with the GEM-SA uncertainty quantification software by Kennedy and O’Hagan. This allows sensitivity analyses to be performed using Gaussian Process Emulation.

CINCH1 (Covid-19 INfection Control in Hospitals)

N Gotts | Published Sun Aug 29 13:13:03 2021

CINCH1 (Covid-19 INfection Control in Hospitals), is a prototype model of physical distancing for infection control among staff in University College London Hospital during the Covid-19 pandemic, developed at the University of Leeds, School of Geography. It models the movement of collections of agents in simple spaces under conflicting motivations of reaching their destination, maintaining physical distance from each other, and walking together with a companion. The model incorporates aspects of the Capability, Opportunity and Motivation of Behaviour (COM-B) Behaviour Change Framework developed at University College London Centre for Behaviour Change, and is aimed at informing decisions about behavioural interventions in hospital and other workplace settings during this and possible future outbreaks of highly contagious diseases. CINCH1 was developed as part of the SAFER (SARS-CoV-2 Acquisition in Frontline Health Care Workers – Evaluation to Inform Response) project
(https://www.ucl.ac.uk/behaviour-change/research/safer-sars-cov-2-acquisition-frontline-health-care-workers-evaluation-inform-response), funded by the UK Medical Research Council. It is written in Python 3.8, and built upon Mesa version 0.8.7 (copyright 2020 Project Mesa Team).

Risk assessments are designed to measure cumulative risk and promotive factors for delinquency and recidivism, and are used by criminal and juvenile justice systems to inform sanctions and interventions. Yet, these risk assessments tend to focus on individual risk and often fail to capture each individual’s environmental risk. This agent-based model (ABM) explores the interaction of individual and environmental risk on the youth. The ABM is based on an interactional theory of delinquency and moves beyond more traditional statistical approaches used to study delinquency that tend to rely on point-in-time measures, and to focus on exploring the dynamics and processes that evolve from interactions between agents (i.e., youths) and their environments. Our ABM simulates a youth’s day, where they spend time in schools, their neighborhoods, and families. The youth has proclivities for engaging in prosocial or antisocial behaviors, and their environments have likelihoods of presenting prosocial or antisocial opportunities.

Holmestrand School Model

Jessica Dimka | Published Fri Jun 18 20:09:15 2021

The Holmestrand model is an epidemiological agent-based model. Its aim is to test hypotheses related to how the social and physical environment of a residential school for children with disabilities might influence the spread of an infectious disease epidemic among students and staff. Annual reports for the Holmestrand School for the Deaf (Norway) are the primary sources of inspiration for the modeled school, with additional insights drawn from other archival records for schools for children with disabilities in early 20th century Norway and data sources for the 1918 influenza pandemic. The model environment consists of a simplified boarding school that includes residential spaces for students and staff, classrooms, a dining room, common room, and an outdoor area. Students and staff engage in activities reflecting hourly schedules suggested by school reports. By default, a random staff member is selected as the first case and is infected with disease. Subsequent transmission is determined by agent movement and interactions between susceptible and infectious pairs.

Netlogo model that shows how the cooling process determines the quality of a solution in simulated annealing using Metropolis algorithm.

The model is designed to analyse the effects of mitigation measures on the European brown hare (Lepus europaeus), which is directly affected by ongoing land use change and has experienced widespread decline throughout Europe since the 1960s. As an input, we use two 4×4 km large model landscapes, which were generated by a landscape generator based on real field sizes and crop proportions and differed in average field size and crop composition. The crops grown annually are evaluated in terms of forage suitability, breeding suitability and crop richness for the hare. Six mitigation scenarios are implemented, defined by a 10 % increase in: (1) mixed silphie, (2) miscanthus, (3) grass-clover ley, (4) alfalfa, (5) set-aside, and (6) general crop richness. The model shows that that both landscape configuration and composition have a significant effect on hare population development, which responds particularly strongly to compositional changes.

The Bronze Age Collapse model (BACO model) is written using free NetLogo software v.6.0.3. The purpose of using the BACO model is to develop a tool to identify and analyse the main factors that made the Late Bronze Age and Early Iron Age socio-ecological system resilient or vulnerable in the face of the environmental aridity recorded in the Aegean. The model explores the relationship between dependent and independent variables. Independent variables are: a) inter-annual rainfall variability for the Late Bronze Age and Early Iron Age in the eastern Mediterranean, b) intensity of raiding, c) percentage of marine, agricultural and other calorie sources included in the diet, d) soil erosion processes, e) farming assets, and d) storage capacity. Dependent variables are: a) human pressure for land, b) settlement patterns, c) number of commercial exchanges, d) demographic behaviour, and e) number of migrations.

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