Computational Model Library

Pastoralscape

Matthew Sottile | Published Tue Oct 12 21:54:57 2021

Pastoralscape is a model of human agents, lifestock health and contageous disease for studying the impact of human decision making in pastoral communities within East Africa on livestock populations. It implements an event-driven agent based model in Python 3.

This is a basic Susceptible, Infected, Recovered (SIR) model. This model explores the spread of disease in a space. In particular, it explores how changing assumptions about the number of susceptible people, starting number of infected people, as well as the disease’s infection probability, and average duration of infection. The model shows that the interactions of agents can drastically affect the results of the model.

We used it in our course on COVID-19: https://www.csats.psu.edu/science-of-covid19

This is an extension of the basic Suceptible, Infected, Recovered (SIR) model. This model explores the spread of disease in two spaces, one a treatment, and one a control. Through the modeling options, one can explore how changing assumptions about the number of susceptible people, starting number of infected people, the disease’s infection probability, and average duration impacts the outcome. In addition, this version allows users to explore how public health interventions like social distancing, masking, and isolation can affect the number of people infected. The model shows that the interactions of agents, and the interventions can drastically affect the results of the model.

We used the model in our course about COVID-19: https://www.csats.psu.edu/science-of-covid19

Open Peer Review Model

Federico Bianchi | Published Mon May 24 16:54:39 2021

This is an agent-based model of a population of scientists alternatively authoring or reviewing manuscripts submitted to a scholarly journal for peer review. Peer-review evaluation can be either ‘confidential’, i.e. the identity of authors and reviewers is not disclosed, or ‘open’, i.e. authors’ identity is disclosed to reviewers. The quality of the submitted manuscripts vary according to their authors’ resources, which vary according to the number of publications. Reviewers can assess the assigned manuscript’s quality either reliably of unreliably according to varying behavioural assumptions, i.e. direct/indirect reciprocation of past outcome as authors, or deference towards higher-status authors.

Peer reviewed MOOvPOPsurveillance

Aniruddha Belsare Matthew Gompper Joshua J Millspaugh | Published Tue Apr 4 17:03:40 2017 | Last modified Tue May 12 16:37:24 2020

MOOvPOPsurveillance was developed as a tool for wildlife agencies to guide collection and analysis of disease surveillance data that relies on non-probabilistic methods like harvest-based sampling.

Peer reviewed MOOvPOP

Aniruddha Belsare Matthew Gompper Joshua J Millspaugh | Published Mon Apr 10 20:03:42 2017 | Last modified Tue May 12 06:14:14 2020

MOOvPOP is designed to simulate population dynamics (abundance, sex-age composition and distribution in the landscape) of white-tailed deer (Odocoileus virginianus) for a selected sampling region.

Individually parameterized mussels (Mytilus californianus) recruit, grow, move and die in a 3D environment while facing predation (in the form of seastar agents), heat and desiccation with increased tide height, and storms. Parameterized with data collected by Wootton, Paine, Kandur, Donahue, Robles and others. See my 2019 CoMSES video presentation to learn more.

The model is an agent-based artificial stock market where investors connect in a dynamic network. The network is dynamic in the sense that the investors, at specified intervals, decide whether to keep their current adviser (those investors they receive trading advise from). The investors also gain information from a private source and share public information about the risky asset. Investors have different tendencies to follow the different information sources, consider differing amounts of history, and have different thresholds for investing.

An agent-based model is used to simulate legislators’ behavior under secret voting rules, as influenced by the power of the accused politician, the composition of the voting body, and the publicity of the accusations.

Leptospirosis is a neglected, bacterial zoonosis with worldwide distribution, primarily a disease of poverty. More than 200 pathogenic serovars of Leptospira bacteria exist, and a variety of species may act as reservoirs for these serovars. Human infection is the result of direct or indirect contact with Leptospira bacteria in the urine of infected animal hosts, primarily livestock, dogs, and rodents. There is increasing evidence that dogs and dog-adapted serovar Canicola play an important role in the burden of leptospirosis in humans in marginalized urban communities. What is needed is a more thorough understanding of the transmission dynamics of Leptospira in these marginalized urban communities, specifically the relative importance of dogs and rodents in the transmission of Leptospira to humans. This understanding will be vital for identifying meaningful intervention strategies.
One of the main objectives of MHMSLeptoDy is to elucidate transmission dynamics of host-adapted Leptospira strains in multi-host system. The model can also be used to evaluate alternate interventions aimed at reducing human infection risk in small-scale communities like urban slums.

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