Kath Sherratt's starred repositories
hubEnsembles
Ensemble methods for combining hub model outputs.
epinowcast
Tools to enable flexible and efficient hierarchical nowcasting of epidemiological time-series using a semi-mechanistic Bayesian model with support for a range of reporting and generative processes.
covidregionaldata
An interface to subnational and national level COVID-19 data. For all countries supported, this includes a daily time-series of cases. Wherever available we also provide data on deaths, hospitalisations, and tests. National level data is also supported using a range of data sources as well as linelist data and links to intervention data sets.
epiRhandbook_eng_achive
R handbook for field epidemiologists
coronavirus-dashboard-api-R-sdk
Coronavirus (COVID-19) in the UK - API Service SDK for R
COVID-19_plus_Russia
COVID-19 data from JHU CSSE, updated with details on Russian regions.
dengue_foi
Example code to estimate force of infection from age-stratified incidence data, as described in "Opportunities for improved surveillance and control of infectious diseases from age-specific case data: insight from dengue".