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Blythe Adamson, PhD, MPH
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Blythe Adamson, PhD, MPH

Course

Tools for Reproducible Real-World Analyses

Upcoming sessions:

University of York May 28, 2022

Past sessions:

Virtual May 24-25, 2021

Copenhagen Nov 2, 2019

New Orleans May 18, 2018

Barcelona Nov 7, 2018

This course focuses on the concepts and tools of reproducible research and reporting of modern data analyses. The need for more reproducible tools in health economics and outcomes research is growing rapidly as analyses of real world data become more frequent, involve larger datasets, and employ more complex computations.

We cover the principles of structuring and organizing a modern data analysis, literate statistical analysis tools, formal version control, software testing and debugging, and developing reproducible reports. Numerous real-world examples and an interactive class exercises reinforce the concepts and tools introduced. RStudio Cloud is used for exercises. Participants who wish to gain hands-on experience should bring their laptops.

Concepts

  1. What is reproducible research?
  2. Why is reproducibility so important?
  3. How do we get there?
    • Organizing data
    • Writing clear code
    • Disseminating code & findings
    • Catching mistakes

Materials and Exercises

Slides, code, exercises, and other fun [PASSWORD PROTECTED]

Dataset and data dictionary for exercises [PASSWORD PROTECTED]

Supplemental Resources

coding style & culture

  • Writing system software: code comments
  • Style guide from Google
  • The Tidyverse style guide
  • Software Carpentry: best practices for writing R code
  • Code review best practices

learning R

  • RStudio webinars
  • RStudio cheat sheets
  • R for Data Science textbook (also available as paperback via Amazon)
  • Advanced R programming (covers many advanced topics)

reproducible research

  • Good Practices for Real-World Data Studies of Treatment and/or Comparative Effectiveness: Recommendations from the Joint ISPOR-ISPE Special Task Force on Real-World Evidence in Health Care Decision Making
  • Reproducibility checklist
  • rOpenSci – a non-profit website that fosters reproducible research
  • Coursera Reproducible Research

Top Posts & Pages

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  • RWE accuracy of rapid antigen vs PCR tests for infectious Omicron
    RWE accuracy of rapid antigen vs PCR tests for infectious Omicron
  • ACA Medicaid expansion eliminated racial disparities in timely cancer treatment
    ACA Medicaid expansion eliminated racial disparities in timely cancer treatment
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My Tweets
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Top Posts & Pages

  • Course
    Course
  • RWE accuracy of rapid antigen vs PCR tests for infectious Omicron
    RWE accuracy of rapid antigen vs PCR tests for infectious Omicron
  • ACA Medicaid expansion eliminated racial disparities in timely cancer treatment
    ACA Medicaid expansion eliminated racial disparities in timely cancer treatment
  • About
    About
My Tweets
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