I have a set of five strains effecting a crop and the corresponding RNA-Seq data and HTSeq-Counts from which I have generated DEGs up and down regulated in the crop when infected with each of this five strains.
Now I'm getting highly up and down regulated genes in few strains and low number of up and down regulated in few strains, I want to normalize this values to avoid biased interpretation with respective any particular strain.
Are there any literature/tools available to normalize the values in this situation and to get some uniform values across this five strains..!!
For your information, I have normalized and removed batch effects prior to calculating DEGs.
Thanks in advance.
Regards, Vijay Narsapuram