SimBIID: Simulation-Based Inference Methods for Infectious Disease Models

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: 0.2.1
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: 2021-02-04
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>
License: GPL (≥ 3)
NeedsCompilation: yes
Materials: NEWS
CRAN checks: SimBIID results


Reference manual: SimBIID.pdf


Package source: SimBIID_0.2.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): SimBIID_0.2.1.tgz, r-oldrel (arm64): SimBIID_0.2.1.tgz, r-release (x86_64): SimBIID_0.2.1.tgz, r-oldrel (x86_64): SimBIID_0.2.1.tgz
Old sources: SimBIID archive


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