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covid19canada's Introduction

Epidemiological Data from the COVID-19 Outbreak in Canada

The COVID-19 Canada Open Data Working Group is collecting publicly available information on confirmed and presumptive positive cases during the ongoing COVID-19 outbreak in Canada. Data are entered in a spreadsheet with each line representing a unique case, including age, sex, health region location, and history of travel where available. Sources are included as a reference for each entry. All data are exclusively collected from publicly available sources including government reports and news media. We aim to continue making updates daily.

Methodology, Data Notes & Dashboard

Detailed information about our data collection methodology and sources, answers to frequently asked data questions, specific data notes, and more information about the COVID-19 Canada Open Data Working Group is available on our website.

We have also created an interactive dashboard for up-to-date visual analytics and epidemiological analyses. This is available for public use at: https://art-bd.shinyapps.io/covid19canada/

Citation

Berry I, Soucy J-PR, Tuite A, Fisman D. Open access epidemiologic data and an interactive dashboard to monitor the COVID-19 outbreak in Canada. CMAJ. 2020 Apr 14;192(15):E420. doi: https://doi.org/10.1503/cmaj.75262

Datasets

The full dataset may be downloaded in CSV format from this repository. The full dataset is also available in JSON format from our API. A subset of the data are available on our public case spreadsheet (direct download link) and our public mortality, testing, recovery spreadsheet.

Individual-level Data

  • Codebook: codebook.csv
  • Cases: cases.csv
  • Mortality: mortality.csv
  • Date and time of update: update_time.txt

Health Region-level Time Series

  • Daily and cumulative cases: timeseries_hr/cases_timeseries_hr.csv
  • Daily and cumulative mortality: timeseries_hr/mortality_timeseries_hr.csv

Province-level Time Series

  • Daily and cumulative cases: timeseries_prov/cases_timeseries_prov.csv
  • Daily and cumulative mortality: timeseries_prov/mortality_timeseries_prov.csv
  • Daily and cumulative recovered: timeseries_prov/recovered_timeseries_prov.csv
  • Daily and cumulative testing: timeseries_prov/testing_timeseries_prov.csv
  • Current and change in active cases: timeseries_prov/active_timeseries_prov.csv

Canada-level Time Series

  • Daily and cumulative cases: timeseries_canada/cases_timeseries_canada.csv
  • Daily and cumulative mortality: timeseries_canada/mortality_timeseries_canada.csv
  • Daily and cumulative recovered: timeseries_canada/recovered_timeseries_canada.csv
  • Daily and cumulative testing: timeseries_canada/testing_timeseries_canada.csv
  • Current and change in active cases: timeseries_canada/active_timeseries_canada.csv

Other Files

  • Correspondence between health region names used in our dataset and HRUID values given in Esri Canada's health region map, with 2018 population values: other/hr_map.csv
  • Correspondece between province names used in our dataset and full province names and two-letter abbreviations: prov_map.csv
  • Correspondence between ages given in the individual-level case data and age groups displayed on the data dashboard: other/age_map_cases.csv
  • Correspondence between ages given in the individual-level mortality data and age groups displayed on the data dashboard: other/age_map_mortality.csv

Scripts

  • Data update (script used to prepare the data update each day): scripts/data_update.R
  • Data update validation (script used to help check the data update each day prior to release): scripts/data_update_validation.R
  • Functions for data update validation: scripts/data_update_validation_funs.R
  • API testing (verify consistency between GitHub data and data returned by API): scripts/api_test.R

Acknowledgements

We want to thank all individuals and organizations across Canada who have been willing and able to report data in as open and timely a manner as possible.

Please see below for a recommended citation of this dataset. A number of individuals have contributed to the specific data added here and their names and details are listed below, as well as on our [website] (https://opencovid.ca/about/).

Specific Contributors

Name Role Organization Email Twitter
Isha Berry Founder University of Toronto [email protected] @ishaberry2
Jean-Paul R. Soucy Founder University of Toronto [email protected] @JPSoucy
Meghan O'Neill Data Lead University of Toronto [email protected] @_MeghanONeill
Shelby Sturrock Data Lead University of Toronto [email protected] @shelbysturrock
James E. Wright Data Lead SickKids [email protected] @JWright159
Kamal Acharya Contributor University of Guelph [email protected] @Kamalraj_ach
Gabrielle Brankston Contributor University of Guelph [email protected] @GBrankston
Vinyas Harish Contributor University of Toronto [email protected] @VinyasHarish
Kathy Kornas Contributor University of Toronto [email protected]
Nika Maani Contributor University of Toronto [email protected]
Thivya Naganathan Contributor University of Guelph [email protected]
Lindsay Obress Contributor University of Guelph [email protected]
Tanya Rossi Contributor University of Guelph [email protected] @DrTanyaRossi
Alison Simmons Contributor University of Toronto [email protected] @alisonesimmons
Matthew Van Camp Contributor University of Guelph [email protected]
Wendy Xie Contributor University of Guelph [email protected] @XiaotingXie

covid19canada's People

Contributors

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