This repository contains code for the paper `Sequential Monte Carlo algorithms for agent-based models of disease transmission' by Nianqiao (Phyllis) Ju, Jeremy Heng and Pierre Jacob.

Installation

The package can be installed from R via:

# install.packages("devtools")
devtools::install_github("nianqiaoju/agents")

It depends on the packages Rcpp, RcppEigen, igraph, which can be installed via:

install.packages(c("Rcpp", "RcppEigen","igragh"))

Additionally you might want to install other packages, to help with parallel computation and to compare run-time of algorithms:

install.packages(c("doParallel", "doRNG", "tictoc"))

and to help with manipulating results and plotting:

install.packages(c("dplyr", "ggplot2", "ggtheme"))

although these packages are not strictly required.