Interactions and contrasts for DE analysis in ballgown
1
0
Entering edit mode
khill33 • 0
@khill33-16209
Last seen 4.3 years ago

Hi!

 

Is it possible to test for differential expression among interactions and contrasts in Ballgown? I have a treatment group (drug/control) and sex (m/f). I would like to know the effect of each interaction drug*male, drug*female, control*male, control*female. 

 

Thanks!

ballgown R RNAseq DE interactions • 568 views
ADD COMMENT
0
Entering edit mode
@james-w-macdonald-5106
Last seen 20 hours ago
United States

Have you read the ballgown vignette? You can pass in two design matrices, one in which you have dropped the coefficients you want to test, so it should be straightforward to test for an interaction.

ADD COMMENT

Login before adding your answer.

Traffic: 428 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