Is it okay to scale the RNA-Seq counts after log-transformation?
0
1
Entering edit mode
4.7 years ago

On an RNA-Seq dataset, I want to apply a clustering algorithm which requires zero-mean uni-variance gene expression levels. I am wondering whether it makes sense to use "scale" function in R after taking logarithm of the counts. For microarray data, I was actually using the scale function which (as far as I know) makes sense; but this is the first time I am using RNA-Seq. I heard about "voom" normalization (in "limma" library), but I don't really want to use that since I am not really familiar with the details.

RNA-Seq • 1.0k views
ADD COMMENT

Login before adding your answer.

Traffic: 2179 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6