search

rgcgithub / regenie

regenie is a C++ program for whole genome regression modelling of large genome-wide association studies.
https://rgcgithub.github.io/regenie
Other
187 stars 55 forks source link

FIRTH regression on burden output #554

Closed vanessapitz closed 1 month ago

vanessapitz commented 1 month ago

Hi there, I'm running a burden analysis in regenie and trying to somehow get effect size and SE as output. I know this is a different analysis than just basic association testing, but I was still hoping someone had some pointers for me. I've used --firth and --firth-se but nada. Any help is greatly appreciated!! Thank you

Ojami commented 1 month ago

with --frith flag REGENIE applies Firth correction to burden test statistics as long as the nominal P falls below --pThresh (0.05 by default). What seems to be the problem then?

joellembatchou commented 1 month ago

Hi,

The effect size and SE are displayed in the BETA and SE columns of the output sumstats file.

Cheers, Joelle