The goal of these lessons is to familiarize learners with using Rmarkdown to create scientific publications that include the output of R lang code, data processes, and data visualizations.
Prerequisites
RStudio installed and some experience using RStudio.
| Setup | Download files required for the lesson | |
| 00:00 | 1. Why R Markdown? |
What is reproducible research?
How can R Markdown help research to be more reproducible? What are the benefits of using R Markdown? |
| 00:20 | 2. Getting Started with R Markdown |
How to find your way around RStudio?
How to start an R Markdown document in Rstudio? How is an R Markdown document configured & what is our workflow? |
| 00:45 | 3. R Markdown Syntax: Headings & Lists |
How does markdown in R compare to markdown in other programs?
How to create headings and sub-headings in R Markdown? How to create bulleted and numbered lists in R Markdown? |
| 01:15 | 4. R Markdown Syntax: Hyperlinks, Images & Tables |
How do I create hyperlinks in R Markdown?
How do I insert images or tables into R Markdown? How do I resize images? |
| 01:35 | 5. R Markdown Syntax: Emphasis, Formulas & Footnotes |
How do I emphasize text in an R Markdown document?
How do I add LaTex formulas? How can I make superscript text? How can we add footnotes? |
| 01:55 | 6. R Markdown Syntax: Citations & Bibliography |
How to include citations?
How to create a list of references? How to apply different citation styles? |
| 02:25 | 7. Finding & Applying Existing Journal Templates |
What is the advantage of using the rtciles package?
How to find existing journal templates? |
| 02:35 | 8. Knitr Syntax: Inline Code & Code Chunks |
What is “Knitr”?
When would I want to add inline code? How to add inline code? When would I want to use code chunks? How do I add code chunks? |
| 03:30 | 9. Knitr Syntax: Styling Code Outputs |
How do I make better styled tables in R Markdown?
How do I add captions to code generated figures? How do I consistently size and align images and figures? How do I cross reference figures & tables? |
| 04:10 | 10. Publishing a Report |
How to change the output folder for your rendered document?
How to publish your report on RPubs? How to use Github to publish your document as a webpage? |
| 04:40 | Finish |
The actual schedule may vary slightly depending on the topics and exercises chosen by the instructor.