Estimating the amount of superspreading using outbreak sizes of COVID-19 outside China

Source code accompanying Endo et al. "Estimating the amount of superspreading using outbreak sizes of COVID-19 outside China". https://wellcomeopenresearch.org/articles/5-67

Main files

• COVID19_clustersize.ipynb/.html: Jupyter Notebook to reproduce the analysis in the paper
• bycountries_27Feb2020.csv: Data file of imported/local case counts by country from WHO situation report 38
• dailycases_international_27Feb2020.csv: Data file of daily case counts by country from COVID2019.app
• supplementarymaterials.pdf: Supplementary materials (Figures S1-S3 and descriptions)

Licence

MIT

Dependencies

• R ver. 3.6.1
• {LaplacesDemon} ver. 16.1.1
• {repr} ver. 1.0.1
• {IRkernel} ver. 1.0.2
• Python ver. 3.7.4
• Jupyter Notebook ver. 4.5.0

Authors

Akira Endo, Sam Abbott, Adam Kucharski, Sebastian Funk