GillespieSSA: A user-friendly stochastic simulation package for R
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- Centre for Mathematical Biology, University of Alberta
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- Document Type:
- Poster
- Date:
- Received 21 August 2009 17:49 UTC; Posted 24 August 2009
- Subjects:
- Ecology
- Abstract:
GillespieSSA is a package for the statistical computing and graphics language and environment R. GillespieSSA provides a simple to use and extensible interface to several stochastic simulation algorithms for generating simulated trajectories of finite population continuous-time model. Currently it implements Gillespie’s exact stochastic simulation algorithm (Direct method) and several approximate methods (Explicit tau-leap, Binomial tau-leap, and Optimized tau-leap). The package also contains a library of template models that can be run as demo models and can easily be customized and extended. Currently the following models are included, decaying-dimerization reaction set, linear chain system, logistic growth model, Lotka predator-prey model, Rosenzweig-MacArthur predator-prey model, Kermack-McKendrick SIR model, and a metapopulation SIRS model.
- Presented at:
- useR! 2007 meeting, Iowa State University, 10 August 2007
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- License:
- This document is licensed to the public under the Creative Commons Attribution 3.0 License
- How to cite this document:
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Pineda-Krch, Mario. GillespieSSA: A user-friendly stochastic simulation package for R. Available from Nature Precedings <http://dx.doi.org/10.1038/npre.2009.3673.1> (2009)
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