08/04/2014 @ JSM, Boston
A word of caution
Take-home message
# install R, and
install.packages('knitr')
# and optionally install RStudio (http://www.rstudio.com)
I know you click, click, copy and paste
But imagine you hear these words after you finished a project
Please do that again! (sorry we made a mistake in the data, want to change a parameter, and yada yada)
Automation! Automation! Automation!
Basic ideas of dynamic documents
- code + narratives = report
i.e. computing languages + authoring languages
We built a linear regression model. ```{r} fit <- lm(dist ~ speed, data = cars) b <- coef(fit) plot(fit) ``` The slope of the regression is `r b[1]`.an example
Reproducible code + narratives
Reproducible research in the past
- Sweave (Leisch, 2002)
- R + LaTeX
Oh LaTeX…
Learning new tools
A quick intro to knitr (and rmarkdown)
- https://yihui.org/knitr
- http://rmarkdown.rstudio.com
- features
- text output
- graphics output
- cache
- other computing languages
- and a lot more…
Wow, that looks cool!
But how do I change font size / color / page width /…?
The knitr book
Be patient, and long live reproducible research!
