Question: Check for variation between two replicates in transcriptome data
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gravatar for sagardesai91
7 months ago by
sagardesai9150
IBAB, Bengaluru, India
sagardesai9150 wrote:

Hello everyone, I have two control samples for an RNA-seq experiment that are behaving very differently, on doing a PCA, they cluster quite far away from each other. I want to check for variation between the two samples. Could anyone suggest an appropriate statistical test or a package that could help me with the above? Would z-test do?

ADD COMMENTlink written 7 months ago by sagardesai9150

Pearson Correlation is a good start, so cor on the count matrix. What question do you eventually want to answer?

ADD REPLYlink modified 7 months ago • written 7 months ago by ATpoint29k

Great! I'll try it out, thanks a lot!

ADD REPLYlink written 7 months ago by sagardesai9150

I just want to know how different these two replicates are from each other

ADD REPLYlink written 7 months ago by sagardesai9150
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