Reproducible Research using R (and other tools)

Co-hosted with the Sydney Users of R Forum (SURF).

Date:  Tuesday, 26 August 2014

Time: 6:00pm – 6.30pm: Refreshments
6:30pm – 7.30pm: Lecture
7:30pm – 8:00pm: Dinner

Venue: The University of Technology Sydney, Building 4, Level 2, Room 34, CB04.02.34, Corner of Harris St. & Thomas St., Ultimo, NSW 2007.

Dr. Rich FitzJohn
Macquarie University, Sydney
Reproducible Research using R (and other tools)
Reproducibility in research is increasingly called for, but carrying it out remains a challenge. I will give a tour through the tools used in a recent real-life research project where we attempted to make the project reproducible from data acquisition to generating the manuscript. These tools include the R packages “knitr” (for generating reports directly from R output) and “packrat” (for dependency management), as well as tools outside of R: make for pipeline management, git for version control, and travis for continuous testing of the research. Our experience shows both the potential benefits of reproducible research, but also the challenges remaining in implementing it.

Biography of Dr. Rich FitzJohn
Rich FitzJohn is a computational biologist, currently based at Macquarie University. His research interests are about reconstructing trait evolution and diversification over millions of years. He has been using R in a research context for 10 years, and is the author of a number of packages for evolutionary analysis. He also teaches R skills through Software Carpentry

Reproducible Research using R (and other tools)
When: 26/08/2014
Time: 12:00 am
Cost: Free

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