Parameter inference for an individual based model of chytridiomycosis in frogs

DOI10.1016/J.JTBI.2011.02.010MaRDI QIDQ2413873zbMATH OpenOpenAlexWikidataFDO

Authors Leah R. Johnson, Cheryl J. Briggs

Publication date 17 September 2018

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1008.0746

zbMATH Keywords

agent based modelBayesian inferencechytridiomycosisindividual based modelparameter inference

Mathematics Subject Classification ID

Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10) Applications of statistics to environmental and related topics (62P12) Ecology (92D40)

Abstract: Individual Based Models (IBMs) and Agent Based Models (ABMs) have become widely used tools to understand complex biological systems. However, general methods of parameter inference for IBMs are not available. In this paper we show that it is possible to address this problem with a traditional likelihood-based approach, using an example of an IBM developed to describe the spread of Chytridiomycosis in a population of frogs as a case study. We show that if the IBM satisfies certain criteria we can find the likelihood (or posterior) analytically, and use standard computational techniques, such as Markov Chain Monte Carlo (MCMC), for parameter inference.

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Cites work

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• Models for ecological data. An introduction.
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Cited in

(4)

• Analyzing stochastic computer models: a review with opportunities
• SOFTWARE ENGINEERING CONSIDERATIONS FOR INDIVIDUAL-BASED MODELS
• Statistical agent-based models for discrete spatio-temporal systems
• scientific article; zbMATH DE number 2207720 (Why is no real title available?)

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Uses Software

• BacSim

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