rmarkdown: burn it all down

[stephenturner]

http://bioconnector.org/workshops/r-rmarkdown.html
https://github.com/bioconnector/workshops/blob/master/r-rmarkdown.Rmd

This whole lesson probably needs reworking. No one needs to know the gory details presented here. It should really be taught top-down instead of bottom up. Show people some RMarkdown in action first, then get into the details.

See also #49 - the reproducible research section is woefully out of date.

Some resources to look at:

• http://rmarkdown.rstudio.com/lesson-1.html / https://vimeo.com/142172484
• https://www.rstudio.com/resources/webinars/getting-started-with-r-markdown/

On reproducibility:

Reproducibility and replicability is a glossy science now so watch out for the hype · Simply Statistics
https://simplystatistics.org/2017/03/02/rr-glossy/

Instead of research on reproducibility, just do reproducible research · Simply Statistics
https://simplystatistics.org/2015/12/11/instead-of-research-on-reproducibility-just-do-reproducible-research/

A Simple Explanation for the Replication Crisis in Science · Simply Statistics
https://simplystatistics.org/2016/08/24/replication-crisis/

Practical computational reproducibility in the life sciences | bioRxiv
https://www.biorxiv.org/content/early/2017/10/11/200683

Project-oriented workflow - Tidyverse
https://www.tidyverse.org/articles/2017/12/workflow-vs-script/

cc @vpnagraj