Entering edit mode
6 months ago
rrehimi
•
0
Dear All,
I would like to perform differential expression analysis using RNA seq fastq files (treated vs control). I am new in using Galaxy. Recently I performed the analysis following youtube tutorial, using limma-Voom and I already have list of significant genes. Now I just came to know that I should normalize my RNA seq data.
My question is
- How can I normalize my RNA seq data before analysis or after?
- How can I get FPKM counts for my data?
Thank you in advance,
Rizwan
You should provide row count (without normalization) for doing DEG analysis by relevant tools such as, edgeR or DEseq.
Thanks! Could you please explain the DEseq2 method using Galaxy step by step? Input files?
No. Find a tutorial, try it, then if you have specific questions, ask of the galaxy help site.
https://help.galaxyproject.org/