SimBIID: Simulation-based inference for infectious disease models

In tjmckinley/SimBIID: Simulation-Based Inference Methods for Infectious Disease Models

Simulation-based inference for infectious disease models

Description

Package implements various simulation-based inference routines for infectious disease models.

Details

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.

Author(s)

Maintainer: Trevelyan J. McKinley [e-mail]

Authors:

• Stefan Widgren [e-mail] (Author of 'R/mparse.R')

Other contributors:

• Pavol Bauer (R/mparse.R) [copyright holder]

• Robin Eriksson (R/mparse.R) [copyright holder]

• Stefan Engblom (R/mparse.R) [copyright holder]

See Also

Useful links:

• https://github.com/tjmckinley/SimBIID

• Report bugs at https://github.com/tjmckinley/SimBIID/issues

tjmckinley/SimBIID documentation built on July 3, 2025, 6:44 p.m.