Closed mariellabogoni closed 2 years ago
@mariellabogoni what do you mean by mixture model -- would you elaborate?
I would also be interested in this functionality, particularly logistic regression for binary outcomes. I assume "mixture models" means linear mixed models like those implemented in BOLT-LMM that can account for genetic relatedness between individuals.
Thanks!
Kath
the most general approach we have is susie_rss
(susie regression with summary statistics)
which applies susie to z scores and an LD matrix.
So, for example, you can
compute z scores under a logistic regression, or mixed model, and apply susie_rss
to those z scores.
We have attempted to make susie_rss somewhat robust to misspecification of the LD matrix and continue to work on
further improving this. You should be able to get more help with ?susie_rss
For the specific case of logistic regression we have also implemented a version of susie specific to the logistic model. It is not really clear whether this is better than using susie_rss on z scores, or even just applying susie with a binary outcome (if effect sizes are small, as they are in most genetic studies, logistic regression and linear regression usually produce very similar results). But we have implemented it. @andrewg3311 is responsible for that work, and I'll let him point you to anything he can share as it is very much "work in progress".
is possible to extend to mixture models? or generalized linear models such as logistic model? thank you!