It is easy to follow the DESeq2 instructions even if you are not very familiar with R. Most of the commands in the .R script we'll use today are verbatim taken from the Vignette:
Start a project on your laptop.:
Initiate some directories:
Download these two directories and put them in
DOWNLOAD AN UPDATED SCRIPT AND PUT IT IN
02_scriptsdirectory so it is saved but out of the way.
Explore the files you have acquired.
Open the script file in Rstudio
We will switch over to the DESeq2 script file now.
Downstream experimentation Revisit the original powerpoint from the first day called RNA-seq Intro & Experimental Design. There are a few slides at the end that illustrate some examples of what you can do with the differentially expressed genes to verify, study, and understand them. The point of RNA-seq should be to stimulate some hypotheses that can be experimentally tested.