SimBIID: Simulation-Based Inference Methods for Infectious Disease Models (original) (raw)
Provides some code to run simulations of state-space models, and then use these in the Approximate Bayesian Computation Sequential Monte Carlo (ABC-SMC) algorithm of Toni et al. (2009) <doi:10.1098/rsif.2008.0172> and a bootstrap particle filter based particle Markov chain Monte Carlo (PMCMC) algorithm (Andrieu et al., 2010 <doi:10.1111/j.1467-9868.2009.00736.x>). Also provides functions to plot and summarise the outputs.
| Version: | 0.2.2 |
|---|---|
| Depends: | R (≥ 3.5) |
| Imports: | stats, dplyr, purrr, tibble, ggplot2, tidyr, mvtnorm, grDevices, RColorBrewer, Rcpp, RcppXPtrUtils, coda |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | parallel, GGally, testthat |
| Published: | 2025-04-03 |
| DOI: | 10.32614/CRAN.package.SimBIID |
| Author: | Trevelyan J. McKinley [aut, cre], Stefan Widgren [aut] (Author of 'R/mparse.R'), Pavol Bauer [cph] (R/mparse.R), Robin Eriksson [cph] (R/mparse.R), Stefan Engblom [cph] (R/mparse.R) |
| Maintainer: | Trevelyan J. McKinley <t.mckinley at exeter.ac.uk> |
| BugReports: | https://github.com/tjmckinley/SimBIID/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/tjmckinley/SimBIID |
| NeedsCompilation: | yes |
| Materials: | NEWS |
| CRAN checks: | SimBIID results |
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