Software Open Access
Repo for Leech & Rogers-Smith et al (2021), "Mass mask-wearing is associated with reduced COVID-19 transmission"
Gavin Leech;
Charlie Rogers-Smith;
Mrinank Sharma
by Charlie Rogers-Smith and Gavin Leech, based on the work of Brauner et al.
Linux
Installation
git clone https://github.com/g-leech/masks_v_mandates.git- 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
poetry shellpython scripts/produce_master_model_data.pymkdir picklespython3 scripts/main_model_runner.py --model="cases" --masks="wearing" --mob="include"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
Files
(233.9 MB)
| Name | Size | |
|---|---|---|
|
ascertainment_ci.pdf
md5:60c862746a24aca4f731f66330822c88 |
15.5 kB | Download |
|
LICENSE
md5:88e2b480d58e1dfdd3f244a22020b03a |
1.1 kB | Download |
|
mask_effect_Czech Republic.pdf
md5:1d176fe76c2199e5a094c6346666adab |
22.1 kB | Download |
|
mask_effect_plot.pdf
md5:e55d1e35035d0b94a95d1de50be2de4c |
17.4 MB | Download |
|
mask_effect_Sweden.pdf
md5:cfedbc5105115c39157ea94d7d9dd4fb |
20.0 kB | Download |
|
mask_effect_United Kingdom.pdf
md5:80fd3c8fb1166c0673cd986c371014d8 |
20.2 kB | Download |
|
masks_v_mandates.zip
md5:8418481b90216ab792aa04bed0c3de5b |
175.8 MB | Download |
|
pp_grid.pdf
md5:70c3ae61a874cd0416a081bce3eb4995 |
153.8 kB | Download |
|
ppc_average_1000.pdf
md5:23b2adf74a051c52a1fcb2cb9725bb09 |
16.2 kB | Download |
|
ppc_rollouts_1.pdf
md5:6f930fcb788cf72430c02c1c93081fee |
33.2 kB | Download |
|
ppc_rollouts_2.pdf
md5:99212797b4b46ce4c40548f462f45def |
33.4 kB | Download |
|
predictive_curves_wearing.pdf
md5:e047774dfa582be82a6e7a780b3aa3db |
29.2 MB | Download |
|
pyproject.toml
md5:3a27dba2958cbdf92997f95d62bd0f91 |
1.3 kB | Download |
|
README.md
md5:611567ebeabf69ac065c619b2da98151 |
2.1 kB | Download |
|
region_panels_wearing.pdf
md5:6e7c285f5cf759e32c276a79c47b0726 |
8.8 MB | Download |
|
traceplots.zip
md5:29e89c3bf293d0736939f260a226c562 |
2.4 MB | Download |
420
250
views
downloads
| All versions | This version | |
|---|---|---|
| Views | 420 | 420 |
| Downloads | 250 | 250 |
| Data volume | 4.2 GB | 4.2 GB |
| Unique views | 366 | 366 |
| Unique downloads | 120 | 120 |
Indexed in
- Publication date:
- March 25, 2022
- DOI:
-
- Communities:
- License (for files):
- Creative Commons Attribution 4.0 International