I'm completely new to bioinformatics. I was trying to do a differential RNA seq analysis on a TCGA dataset (STAD samples); specifically between specific groups of STAD samples. I downloaded individual TCGA STAD samples as tar.gz files on to my computer. Several questions: 1.) do I need to put these samples into R?; 2.)is there a code that I could plug into R to obtain the differences in RNA in the two sets of STAD samples? 3.) Is DeSeq2 involved in this?
Sorry that these are very basic questions--I have absolutely no computer experience right now.