I am working on RNA Seq data analysis to get differential gene expression between 2 conditions. I am using ballgown package on R, and successfully loaded the data into R. However, I do have these queries after my progress:
- Is it necessary to remove low variance transcripts while doing differential gene expression? And why?
- Why do we need to remove low gene abundance & low variance transcripts?
- How do I get gene name and gene id without stattest() function on R using ballgown?
Thanks in advance!