[GenABEL-dev] ProbABEL: mmscore and interaction
L.C. Karssen
lennart at karssen.org
Fri Oct 17 16:54:29 CEST 2014
Dear list,
There is a question on the forum [1] that I'm not sure how to answer.
The user wants to run mmscore and test for interactions. There is
nothing in ProbABEL that prevents her from doing that. However, in the
manual we state:
"Though technically --mmscore allows for inclusion of multiple
covariates, these should be kept to minimum as this is a score test. We
suggest that any covariates explaining an essential proportion of
variance should be fit as part of GenABEL’s polygenic procedure."
Does this also apply for interactions between SNP and a covariate? If so
we should produce an error message when both options are specified.
What is the proper way to deal with interactions and mmscore?
Best,
Lennart.
[1] http://forum.genabel.org/viewtopic.php?f=10&t=896
--
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L.C. Karssen
Utrecht
The Netherlands
lennart at karssen.org
http://blog.karssen.org
GPG key ID: A88F554A
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