This repo links to a collection of analyses on and representations of COVID19 data in R. Inclusion on the list does not mean the analysis was verified by me or that I endorse the findings. It should also be noted that some of the analysis / data might be out of date, so these should not be viewed, by default, as current findings.
I'm collecting them as they get posted online so that I can come back to them later to develop educational examples based on theses data. I should also note that one should think about using these as class examples thoroughly -- the situation is affecting all of us (and our students) greatly and it's possible some students are personally affected by the pandemic.
Subheadings are in flux as of now, as more analyses get added I might recategorize them.
If you have examples to add, please open an issue or make a pull request.
- Simulating COVID-19 interventions with R
- Analysing COVID-19 (2019-nCoV) outbreak data with R - part 1
- Analysing COVID-19 (2019-nCoV) outbreak data with R - part 2
- Modelling the effects of public health interventions on COVID-19 transmission using R - part 1
- Modelling the effects of public health interventions on COVID-19 transmission using R - part 2
- COVID-19: The Case of Germany
- Map Visualization of COVID-19 Across the World with R
- COVID-19 cumulative observed case fatality rate over time
- Impact of a country's age breakdown on COVID-19 case fatality rate
- COVID-19 Tracker: Days since N
- COVID-19 Has Become a Partisan Issue (How to Make Dumbbell Plots in R
- Get Your Epidemiology from Epidemiologists
- Flatten the COVID-19 curve
- A Beginner’s Guide to Creating a Corona “Dashboard”
- Infectious diseases and nonlinear differential equations
- COVID-19: The Case of Spain
- Epidemic modelling of COVID-19 in the UK using an SIR model
- Modeling Pandemics (2)
- Don’t speculate, simulate!
- Coronavirus model using R — Colombia
- Epidemiology: How contagious is Novel Coronavirus (2019-nCoV)?
- A COVID Small Multiple
- Merge Covid-19 Data with Governmental Interventions Data
- COVID-19 Data and Prediction for Michigan
- Tidying the new Johns Hopkins Covid-19 time-series datasets
- Covid deaths graphs -- a walk-through (part 1)
- Covid deaths graphs -- school closure (part 2)
- Covid deaths graphs -- lockdown (part 3)
- Coverage of COVID research by the A&I databases
- Top 25 R resources on Novel COVID-19 Coronavirus
- COVID-19 tracker [Code]
- Visualization of Covid-19 Cases [Code]
- COVID-19 Live Report [Code]
- COVID-19 Data Visualization Platform
- COVID-19 Application
- Coronavirus (COVID-19) Across The World
- Coronavirus COVID-19 Global Cases
- COVID-19 in derivatives [Code]
- Utah.gov Coronavirus Dashboard (Access seems restricted outside of the US)
- Visualisation of Covid-19 case data for the Island of Ireland [Code]
- COVID-19 Cases in Ontario
- Observatório COVID-19 BR
- Coronavirus dashboard
- Covid-19 [Code linked in app]
- CoronaDash
- Coronavirus COVID-19 : Répartition des cas infectés en Tunisie
- COVID-19 Tracker
- Thailand: COVID-19 Growth Dashboard
- Covid-19: country comparison
- Covid-19 Italy
- Government of Alberta COVID-19 dashboard
- Covid-19 Turkey
- Tableau de bord de suivi de l’épidémie de coronavirus en France
- Modeling COVID-19 Spread vs Healthcare Capacity - [Twitter thread] [Code]
- Covid-19 in United States
- COVID-19 in India
- The math behind flatten the curve [Code]
- Flatten the Curve
- Tracking COVID-19
- #explainCovid19 challenge
- COVID-19: Modeling the Flattening of the Curve
- An R Package to Explore the Novel Coronavirus
- COVID-19 call-to-arms
- COVID-19 State Tracker Dashboard
- COVID-19 Explorer
- Analisis descriptivo de contagio por Coronavirus
- COVID-19 Acute and Intensive Care Resource Tool
- Datos COVID-19 (SARS-CoV-2)
- COVID-19 Global Meter
- Covid19-Cases
- covid-19 monitor
- US Coronavirus Tracker
- Covid-19 cases
- COVID-19 Schweiz - Open Source Version [Code]
- COVID-19 Dashboard
- Examining COVID-19 data
- Playlist of COVID-19 related R tutorials by CradleToGraveR
- Cleaning and exploring the COVID-19 Open Research Dataset by David Robinson
Most of these are data only packages, but sone omly feature functions for creating visualisations and dashboard from the data in the package.
- 📦 coronavirus
- 📦 nCoV2019.data
- 📦 covidR
- 📦 coronabr
- 📦 covid19br
- 📦 coronabr
- 📦 covid19italy
- 📦 covid19at
- 📦 ncovmap - data of China and global world, China map, Province map of china World map, maps of Italy, Japan, Korea and Iran
- 📦 nCov2019
- 📦 covid19us
- 📦 covid19germany
These are not necessarily R specific resources, but they're mostly what the analyses in R rely on and/or are stored in a format that is easily digestable by R.
- COVID-19 data API updated daily with a simple plotting interface (based on JHU repo)
- NY data: https://github.com/car325/nytc19
- NY Times data: https://github.com/nytimes/covid-19-data
- Australia data: https://github.com/covid-19-au
- NZ data: https://github.com/nzherald/nz-covid19-data
- French data:
- TO DO: SFBart said they'll be posting ridership numbers each day (https://twitter.com/SFBART/status/1239904439542005760?s=20), need to track down how to compile. Also see here.
I know I've seen some in the past few days, need to track them down again...
- Visualizing COVID-19 by Randy Prium
- Maps made from the Johns Hopkins Coronavirus Data
- Discussion of resources on rOpenSci forum
- U.S. COVID-19 Data Explorer
- Peru calculations
- #COVID19 testing by US state
- COVID-19 Resource Gallery
- US COVID-19 Trends
- Coronavirus Global Cases leaflet map
- How Iceland is predicting COVID-19 cases: Hierarchical Logistic Growth Curves
These are not #rstats specific, but important to digest before diving into the data.
Please note that this project is released with a Contributor Code of Conduct. By participating in this project you agree to abide by its terms.