Intro to Reproducible Research with Rmarkdown

A brief introduction to Rmarkdown in the context of reproducible research.

Disclaimer: these are supplementary slides to introduce the topic before a mostly hands-on session. A followup blog post or presentation outlining the material itself will follow at somepoint and I will add a link here.

Transcript

1. Becoming a reporting! ninja with Rmarkdown! Devin Pastoor! Center for Translational Medicine! University of Maryland, School of Pharmacy!
4. Efficiency!
5. Accountability!
6. Errors!
8. A Roadmap to Reproducibility! Raw Data! Data Processing! Data Analysis! Results! .Rmd /.Rnw report or presentation! Figures! Tables! Written Text! R Scripts! R Scripts! R Scripts!
9. Raw Data! Data Processing! Data Analysis! Results! .Rmd /.Rnw report or presentation! Figures! Tables! Written Text! R Scripts! R Scripts! R Scripts! 1! 2! 3! A Roadmap for Today!
10. Rmarkdown and Knitr!
11. Knitr!
12. Header! Code Chunk! Markdown! Markdown!
13. 1! 2! 3! 4!
15. Raw Data! Data Processing! Data Analysis! Results! .Rmd /.Rnw report or presentation! Figures! Tables! Written Text! R Scripts! R Scripts! R Scripts! 1! 2! 3! A Roadmap for Today!