How does DESeq2 handle multiple conditions in one design.
1
0
Entering edit mode
grsyhhsb • 0
@cdb4b488
Last seen 21 days ago
United States

As an example, if the study design is treatment, and there are 3 different groups of samples in the study, treatment A, treatment B, and treatment C. I know I can get pair-wise comparison by using results(dds, contrast=c("condition","Treatment A","Treatment B"), but I'm curious about how DESeq2 does that. Is DESeq2 constructing a linear model for each gene and each of the 3 conditions and comparing their coefficient pair-wise? Thanks.

DESeq2 • 126 views
ADD COMMENT
0
Entering edit mode
@mikelove
Last seen 4 hours ago
United States

Yes but is it also sharing the dispersion (variance) parameter, there is a FAQ on this in the vignette.

ADD COMMENT

Login before adding your answer.

Traffic: 279 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