Repo for Leech & Rogers-Smith et al (2021), "Mass mask-wearing is associated with reduced COVID-19 transmission"

by Charlie Rogers-Smith and Gavin Leech, based on the work of Brauner et al.

Linux

Installation

1. git clone https://github.com/g-leech/masks_v_mandates.git
2. Get Poetry.

cd masks_v_mandates
poetry install
cd data/raw
wget https://www.gstatic.com/covid19/mobility/Global_Mobility_Report.csv
wget https://www.gstatic.com/covid19/mobility/Region_Mobility_Report_CSVs.zip
unzip Region_Mobility_Report_CSVs.zip
rm Region_Mobility_Report_CSVs.zip
wget https://github.com/OxCGRT/covid-policy-tracker/blob/master/data/OxCGRT_latest.csv
python ../../scripts/pull_from_umd_api.py
cd ../..

Run

1. poetry shell
2. python scripts/produce_master_model_data.py
3. mkdir pickles
4. python3 scripts/main_model_runner.py --model="cases" --masks="wearing" --mob="include"
5. python3 scripts/main_model_runner.py --model="cases" --masks="mandate" --mob="include"

After about 6 hours, this will produce two posterior traces in pickles which can be loaded and visualised with model_check_and_viz, changing the filenames in Load pickles.

Datasets

The data used is from the following sources.

• National nonpharmaceutical interventions: OxCGRT.
• National confirmed case counts: Johns Hopkins CSSE via OxCGRT.
• World mask wearing survey: UMD / Facebook
• US mask wearing survey: Rader (2021)
• National mobility index: Google Mobility Reports