nbanho / transmission_risk_comparison

Comparing transmission risk of respiratory infections in schools

Comparing Airborne transmission risks of tuberculosis and COVID-19 in schools

This repository contains the data and code accompanying the paper "Airborne transmission risks of tuberculosis and COVID-19 in schools in South Africa, Switzerland, and Tanzania: Modeling of environmental data" by Banholzer and Schmutz et al.

The repository is structured as follows:

• analysis: contains code files for analyzing and visualizing the data.

• data-clean: preprocessed data files

• data-raw: raw data files

• preprocessing: files to preprocess all data, i.e. environmental and epidemiological data

• results: directory to store figures and tables of the paper (not in repository)

• utils: helper functions

The relevant files regarding analysis are the following:

• analysis/infection-risk-mtb.R and analysis/infection-risk-sars-cov-2.R: modeling transmission risk with a modified Wells-Riley equation, incorporating data and results from epidemiological and environmental analyses for SARS-CoV-2 and Mtb, respectively

• analysis/ventilation.R: reporting of environmental data used in the analysis

• utils/quanta.R: estimation of the quanta parameter

• utils/settings.R: modeling assumptions and fixed parameters in the Wells-Riley equation