Dear Megan Community member,
I have control and treated RNASeq samples. I want to use them for metatranscriptomics analysis.
I have generated .daa file using SAMSA 2 package.
I have meganized the .daa file using MEGAN 6 software.
I would like compare the above 2 datasets.
In the compare panel, should I use absolute reads or normalized reads? Which would be a better analysis?
The normalized counts is reducing to 4 lakhs whereas the absolute reads is upto 32 lakhs
Kindly help me through this.
Thanks in advance!