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) and a bootstrap particle filter based particle Markov chain Monte Carlo (PMCMC) algorithm (Andrieu et al., 2010 ). Also provides functions to plot and summarise the outputs.


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install.packages("SimBIID")

0.1.3 by Trevelyan J. McKinley, 21 hours ago


https://github.com/tjmckinley/SimBIID


Report a bug at https://github.com/tjmckinley/SimBIID/issues


Browse source code at https://github.com/cran/SimBIID


Authors: 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)


Documentation:   PDF Manual  


GPL (>= 3) license


Imports stats, dplyr, purrr, tibble, ggplot2, tidyr, mvtnorm, grDevices, RColorBrewer, Rcpp, RcppXPtrUtils, coda

Suggests parallel, GGally, testthat

Linking to Rcpp, RcppArmadillo


See at CRAN