Reproducible reports in R Markdown
Jacquie Tran | @jacquietran | 18 Aug 2020
bit.ly/jt_rladies_2020
From academia to industry
Image credit: Andrew Petrischev
Image credit: Emil Widlund
What makes a report reproducible?
Four facets of reproducibility
The Carpentries, Reproducible Research with R
Documentation
Organisation
Four facets of reproducibility
The Carpentries, Reproducible Research with R
Documentation
Organisation
Automation
Four facets of reproducibility
The Carpentries, Reproducible Research with R
Documentation
Organisation
Automation
Dissemination
R Markdown for
Documentation
R Markdown for
Organisation
Source scripts into an R Markdown file
Source scripts into an R Markdown file
In the R Markdown file, source the script from within a code chunk:
source(here::here("plot_penguins.R"))R Markdown for
Automation
R Markdown for
Dissemination
Rmd: One file format, many outputs!
Render an R Markdown report to:
- HTML
- Word
HTML outputs are particularly powerful
Turn an R Markdown file into:
- A slidedeck (like this one!) using
{xaringan}
HTML outputs are particularly powerful
Turn an R Markdown file into:
A slidedeck (like this one!) using
{xaringan}An interactive dashboard using
{flexdashboard}
HTML outputs are particularly powerful
Turn an R Markdown file into:
A slidedeck (like this one!) using
{xaringan}An interactive dashboard using
{flexdashboard}
- An e-book using
{bookdown}
HTML outputs are particularly powerful
Turn an R Markdown file into:
A slidedeck (like this one!) using
{xaringan}An interactive dashboard using
{flexdashboard}
An e-book using
{bookdown}A website using packages like
{blogdown}and{distill}
Useful links
R Markdown articles from R Studio
Yihui Xie, J.J. Allaire, & Garrett Grolemund, R Markdown: The Definitive Guide
Emily Riederer, R Markdown Driven Development
Tom Mock:
- The Mockup Blog, How I share knowledge around R Markdown
- Higher, further, faster with marvelous R Markdown, presented at the 2020 New York R Conference
Useful links
R Markdown articles from R Studio
Yihui Xie, J.J. Allaire, & Garrett Grolemund, R Markdown: The Definitive Guide
Emily Riederer, R Markdown Driven Development
Tom Mock:
- The Mockup Blog, How I share knowledge around R Markdown
- Higher, further, faster with marvelous R Markdown, presented at the 2020 New York R Conference
Looking for this slidedeck + related files?
Slides: bit.ly/jt_rladies_2020
GitHub repo: https://github.com/jacquietran/2020_aug_rladies_akl