DESeq2 paired design: Differential list comparing fold changes
1
0
Entering edit mode
athira • 0
@aarthir239-14254
Last seen 2 days ago
United States

My collaborator is requesting the following -

A single DEG containing fold change STIM vs. UNS in MDD vs. fold change STIM vs. UNS in HC

I would like to know, it this possible with DESeq2? I am currently using the model ~ PatientID + Stimulation * Group

Following is the metadata -

PatientID Stimulation Group
1 UNS MDD
1 STIM MDD
2 UNS MDD
2 STIM MDD
3 UNS MDD
3 STIM MDD
4 UNS MDD
4 STIM MDD
5 UNS MDD
5 STIM MDD
1 UNS HC
1 STIM HC
2 UNS HC
2 STIM HC
3 UNS HC
3 STIM HC
DESeq2 • 101 views
ADD COMMENT
0
Entering edit mode
swbarnes2 ★ 1.1k
@swbarnes2-14086
Last seen 2 hours ago
San Diego

Sounds like you want interactions:

http://bioconductor.org/packages/devel/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#interactions

ADD COMMENT

Login before adding your answer.

Traffic: 226 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