Hello! My name is Jean-Paul R. Soucy and I am a PhD candidate in infectious disease epidemiology at the Dalla Lana School of Public Health at the University of Toronto. My research interests focus on the use of emerging data sources in infectious disease surveillance.
Connect with me on Twitter. Find my personal website at jprs.me and my writing at Data Gripes. Code related to my blog can be found in the data-gripes repository.
- COVID-19 Canada Open Data Working Group
- Python & R packages
- Reproducible research
- Presentations & workshops
- Miscellaneous
Software packages are highlighted with code text.
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- Covid19Canada: The original COVID-19 Canada Open Data Working Group dataset
- CovidTimelineCanada: The Timeline of COVID-19 in Canada, a definitive COVID-19 dataset for Canada
- Covid19CanadaArchive: The Canadian COVID-19 Data Archive
- Covid19CanadaBot,
Covid19CanadaETL,Covid19CanadaDataProcess,Covid19CanadaData: Automated COVID-19 data collection pipeline
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- Covid19CanadaArchive-data-explorer: Data explorer for the Canadian COVID-19 Data Archive
- CovidTimelineCanada-js-dashboard: A simple JS dashboard for the Timeline of COVID-19 in Canada Dataset
- Covid19CanadaDashboard: The original COVID-19 Canada Open Data Working Group dashboard
- Covid19CanadaAPI: Python-based API for the COVID-19 Canada Open Data Working Group dataset
- WhatHappenedCovid19InCanada: Landing page for the What Happened? COVID-19 in Canada project
- CovidDataStandard
- CovidStoriesCanada
- FAIR COVID-19 Data for 🇨🇦
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In addition to the COVID-19 data automation pipeline described above, I have also created the following R and Python packages:
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Wherever possible, I aim to publish reproducible research with open data:
- covid-19-mobility: Estimating the effect of mobility reductions on COVID-19 transmission in 41 cities during the first wave of the pandemic using data from a public transit app
- covid-19-antibiotic: Antibiotic prescribing in patients with COVID-19: A rapid review and meta-analysis
- ccodwg-scientific-data: A sub-national real-time epidemiological and vaccination database for the COVID-19 pandemic in Canada
- covid-19-coinfection-metaregression: Predictors and Microbiology of Co-Infection in Patients with COVID-19: Living Rapid Review Update and Meta-Regression
- california-counties-suicide-and-temperature: The Effect of Average Temperature on Suicide Rates in Five Urban California Counties, 1999–2019: An Ecological Time Series Analysis
- covid-19-patients-amr-meta-analysis: Antimicrobial resistance in patients with COVID-19: a systematic review and meta-analysis
- covid-19-amr-meta-analysis: Antimicrobial resistance in patients with COVID-19: a systematic review and meta-analysis
- covid-19-mobility-responsiveness: Characterizing responsiveness to the COVID-19 pandemic in the United States and Canada using mobility data
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- cssc-2021-r-shiny-workshop: What makes R Shiny so shiny? A step-by-step introduction to interactive dashboards in R (2021)
- dlsph-student-conf-2022-web-scraping-workshop: Web scraping for public health (2022)
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Find my GitHub gists here.