In order to make your analysis pipeline transparent and reproducible, in this class you’ll use R Markdown and Knitr to wrap up all your code and outputs (figures, tables, etc) together in a dyanmic document that can be placed in your lab notebook or published as a supplementary file in your manuscript.
- understand how to construct a basic R markdown document
- transform our course code into an Rmarkdown report
- make an interactive Rmarkdown flexdashboard to display your data
The essentials - brings togther ‘the essential’ code chunks from our previous scripts.
Other examples of markdown in action
Supplementary code file from my lab’s recent transcriptome paper.
This course website - Each page on the course website is just a simple markdown document.