Question: Time Comparisons in Deseq2
gravatar for mrfossl97
6 weeks ago by
mrfossl970 wrote:


I have a data set with a control condition (C) and a test condition (T), at three different time points each.

C timepoint: 1 C timepoint: 2 C timepoint: 3 T timepoint: 1 T timepoint: 2 T timepoint: 3 (Note each time point is a triplicate)

My controls at different time points were not clustering together (PCA plot) as they should be (or at least how I thought they should be); what is the recommended way to compare the control samples at each time point?

I know that I can simply call each time point a different condition (C1, C2, C_3) and compare, but I am wondering if there is a more elegant technique.

Cheers, and thanks for your time!

deseq2 • 75 views
ADD COMMENTlink modified 6 weeks ago by Michael Love24k • written 6 weeks ago by mrfossl970
Answer: Time Comparisons in Deseq2
gravatar for Michael Love
6 weeks ago by
Michael Love24k
United States
Michael Love24k wrote:

Can you take a look at the time series example in the workflow? You can pull these out as main effect terms in the interaction model we show there.

ADD COMMENTlink written 6 weeks ago by Michael Love24k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 349 users visited in the last hour