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: 0.1.3
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: 2019-11-21
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

Downloads:

Reference manual: SimBIID.pdf
Package source: SimBIID_0.1.3.tar.gz
Windows binaries: r-devel: SimBIID_0.1.3.zip, r-devel-gcc8: SimBIID_0.1.3.zip, r-release: SimBIID_0.1.2.zip, r-oldrel: SimBIID_0.1.2.zip
OS X binaries: r-release: SimBIID_0.1.2.tgz, r-oldrel: SimBIID_0.1.2.tgz
Old sources: SimBIID archive

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