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Reporting Reproducible Research with R and Markdown

Time: 5:00 - 6:00
Day: Friday April 11
Location: ENB 109


Why learn R? Fast Company has an excellent article on the rise of R in science and data analytics.

Reproducible research is a hot topic in academic circles these days. Sites like GitHub and open access journals like PLoS One are making it easier than ever for scientists to openly publish results, collaborate and share code, and reuse the data and code released by others in conjunction with journal publications.

This has great implications on the future of research...but more importantly these tools can be used to make your life easier and help you stay up with current academic trends.

In this session, we'll talk about how you can weave code and text together into a single document. This simple idea leads to great benefits that will allow you to
  • Automatically generate (and re-generate) tables and figures.
  • Automatically calculate and report statistics.
  • Change your data...without having to re-run your entire analysis by hand.
  • Output to any format your advisor, granting agency, or journal editor requires. No, really! This includes:
    • HTML
    • PDF
    • Word Doc
    • Plain Text
    • Slides, etc.
  • Share your code and report with others, such as your collaborators and advisors, so they can see exactly what you did and where.
  • Begin using robust version control software like git that are far more flexible than "Track Changes" in Word.
  • Pain-free embedding of citations and bibliographies.
  • Much, much, more.

What do you need?

Bring your laptop if you want to follow along. A link will be posted with the example code that we will use in the session.

To follow along, you'll need to have the following software installed:


Garrick Aden-Buie is a doctoral student in the Department of Industrial and Management Systems Engineering at the University of South Florida. His interests include dynamic systems, optimization and writing pretty code in R and Julia. He received his B.S. in Applied Mathematics and B.A. in Spanish from Lehigh University, and is a Returned Peace Corps Volunteer.

Catch up with his latest projects and thoughts at garrickadenbuie.com or on Twitter at @grrrck.
Garrick Aden-Buie,
Apr 11, 2014, 1:52 PM
Garrick Aden-Buie,
Apr 11, 2014, 1:51 PM
Garrick Aden-Buie,
Apr 11, 2014, 1:51 PM