SVA/Combat without fitting an intercept
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@elim-14262
Last seen 3 months ago
United States

Hello,

I'm trying to remove batch effects from a dataset with sva, but I'm having trouble fitting the contrasts I need because of the intercept. I could only find examples with an intercept, but the majority of my analysis are very hard to interpret with an intercept. Is it ok to use sva with a model without intercept? Does it make a difference which coefficient get set as an intercept in sva?

 

Thank you in advance.

sva combat batch effect limma • 525 views
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