A quick hands-on tutorial into software package management with Miniconda and workflow management with Snakemake, with ioslides produced from Rmarkdown

Looking at the slides

To just look at the slides, just clone this repository...

git clone https://github.com/dlaehnemann/TutMinicondaSnakemake

...and open TutMinicondaSnakemake.html from the respective directory in any (contemporary) web browser.

Changing the slides

1. Edit the Rmarkdown file TutMinicondaSnakemake.Rmd

Links for how to do this:

• Main Rmarkdown documentation
• Rmarkdown cheat sheet
• knitr (code engine behind Rmarkdown) with other languages
• ioslides with Rmarkdown intro

2. Recompile TutMinicondaSnakemake.html using R:

install.packages("rmarkdown")
install.packages("knitr")
library("rmarkdown")
library("knitr")
render("TutMinicondaSnakemake.Rmd")