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MHASpread: A Multi-Host Animal Spread Stochastic Multilevel Model (version 3.0.0)

SEIR_model Births_and_Deaths Spatial_Transmission Animal_Movements Disease_Control_Actions

Model Description

MHASpread is a multi-host, single-pathogen, coupled multiscale model designed to simulate epidemic trajectories of diseases. It incorporates various customizable control actions specific to different zones (such as infected, buffer, and surveillance zones), including depopulation, vaccination, and animal movement standstills, among other countermeasures. The model relies on two main sources of data: population and events. For a detailed description of the data format, please refer to data_format.md. An example of R Script about how to run is presented here.

Model Outputs

Susceptible-Exposed (Latent)-Infectious-Recovered Dynamics Within a Farm

Example of stochastic dynamics of a farm with 100 animals:
Screenshot 2024-06-20 at 1 45 52 PM

Epidemic Curves of Population Farms

Infected farms over time, considering different host species:
Screenshot 2024-06-20 at 1 52 08 PM

Number of Animals in Each Compartment Considering Population Farms

Number of infected animals for all host species (the susceptible compartment is excluded to improve data visualization):
Screenshot 2024-06-20 at 1 57 20 PM

Control Actions

Evaluate the performance of the simulated control actions:
Screenshot 2024-06-21 at 1 17 43 PM

License

This model source is provided under the Proprietary License.

Citation

AUTHOR=Cardenas Nicolas C. , Lopes Francisco P. N. , Machado Alencar , Maran Vinicius , Trois Celio , Machado Felipe Amadori , Machado Gustavo TITLE=Modeling foot-and-mouth disease dissemination in Rio Grande do Sul, Brazil and evaluating the effectiveness of control measures JOURNAL=Frontiers in Veterinary Science VOLUME=11 YEAR=2024 URL=https://www.frontiersin.org/journals/veterinary-science/articles/10.3389/fvets.2024.1468864 DOI=10.3389/fvets.2024.1468864 ISSN=2297-1769

Publisehd article is available here.

Acknowledgments

This model is funded by FUNDESA RS.

Developers

💻 Nicolas Cardenas ORCIDiD at the Machado Lab and
💻 LUMAC team at Universidade Federal de Santa Maria

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Spread disease model in R flavored with python

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