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Question: Interactions and contrasts for DE analysis in ballgown
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gravatar for khill33
4 months ago by
khill330
khill330 wrote:

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!

ADD COMMENTlink modified 4 months ago by James W. MacDonald48k • written 4 months ago by khill330
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gravatar for James W. MacDonald
4 months ago by
United States
James W. MacDonald48k wrote:

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 COMMENTlink written 4 months ago by James W. MacDonald48k
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