different sample size from each individual
1
0
Entering edit mode
LW • 0
@296aca7f
Last seen 5 days ago
United States

Hi,

In my dataset, the number of samples from each individual are different, something like this:

enter image description here

I want to compare active and inactive status, but as you can see, patient 1,2,3 has 1 samples in each status, whereas patient 4,5,6,7,8 contribute multiple samples in each status.

In this scenario, can I design my Deseq model as:

~ status + Patient.ID

to eliminate the unequal variance issue?

Thanks! Leran

DESeq2 • 175 views
ADD COMMENT
0
Entering edit mode
ADD REPLY
0
Entering edit mode

This one is a question for DESeq, that one is for statistics.

ADD REPLY
0
Entering edit mode

Thank you.

ADD REPLY
0
Entering edit mode
@mikelove
Last seen 1 day ago
United States

In DESeq2 we assume a dispersion per gene, so anyway we never model unequal variance/dispersion conditional on X.

You can just use our standard design of ~patient + status.

ADD COMMENT

Login before adding your answer.

Traffic: 140 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6