Data and Code to Reproduce Evans et al. 'Socio-demographic variables can guide prioritized testing strategies for epidemic control in resource-limited contexts'

This repository contains all the code and data needed to reproduce Evans et al. "Socio-demographic variables can guide prioritized testing strategies for epidemic control in resource-limited contexts"

## Instructions for use

Code should be run in order of the numeric directories found under 'scripts'. The order within the directory is not important, except that the `figure-creation.Rmd` script relies on data files and summarized results created by the other scripts in that directory and should be run last. The script `scripts/03_analysis/demographic-predictors-degree.R` relies on protected data that includes socio-demographic variables that are not shared in this repository. Please see that script for more details.

Results of the simulations are provided. These are the raw results of simulations on Madagascar networks (i.e. the full epidemic simulation for all 1000 simulations) and the summarized results for the sensitivity analyses. Madagascar network simulations can be summarized via  `scripts/03_analysis/summarize-results.R`. To reduce object size, results are saved as `.RData` files and must be read into R using `readRDS`.

## Contact

For any questions, please contact Michelle Evans (mv.evans.phd@gmail.com).