ukhsa-internal / coronavirus-hospital-onset-dashboard

This is an R Shiny dashboard for producing Trust level counts of healthcare associated COVID-19 infections in England.

Coronavirus hospital-onset dashboard

This is the main source code for the Coronavirus hospital-onset dashboard service.

DISCLAIMER: Dashboard currently in development and all data is synthetic

This dashboard provides information on patients in hospital who tested positive for infection with SARS-CoV-2 (the virus that causes COVID-19) to understand whether the infection occurred before or during the patient's stay in hospital.

This dashboard indicates the NHS Trust or Independent Sector provider where a patient was located (hospital admission or A&E attendance) when they received their first COVID-19 positive test result. This location does not always indicate where a patient received hospital care for COVID-19. Patients attending A&E who tested positive are assumed to have subsequently been admitted to hospital unless their hospital records indicate otherwise.

Due to variation in reporting on a hospital level, data is subject to change, particularly in the most recent six weeks. This may result in changes to both the provider where a case is reported against, and in the hospital-onset infection category.

Build

If you want to build this locally, you'll need to download and install R and RStudio Desktop

Once you clone this repo, run renv::restore() on your first instance in RStudio to load up the managed package list.

Credits

This service is developed and maintained by Public Health England.

coronavirus-hospital-onset-dashboard's Issues

shinyGovstyle is not on CRAN for R4.0

Problem statement

Dashboard relies on shinyGovstyle, but this package is not on CRAN and there are no installation instructions

Proposed solution

Add link to shinyGovstyle and installation instructions to the readme