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Old 02-23-2015, 01:00 PM   #1
bioBob
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Location: Virginia

Join Date: Mar 2011
Posts: 72
Default DESeq2 paired plus condition

Hi,

I am having some trouble getting my head around it today, its Monday.

Essentially, I have a design matrix like so:

Patient Condition
58 2
58 3
64 2
64 3
...

So, according the the vignette, I need to do ~Patient + Condition. I really want condition differences, NOT patient differences.

I can view the results via results(slim_dds_1, contrast=c("Condition","3","2")). How do I know what was a patient difference? I suppose I could do the reduced formula and compare?

Last edited by bioBob; 02-23-2015 at 01:29 PM.
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