LD thinning requirement?

getian107 / PRScsx

Cross-population polygenic prediction

MIT License

65 stars 20 forks source link

LD thinning requirement? #46

Closed YujianLiang closed 6 months ago

YujianLiang commented 7 months ago

Regarding PRS-csX, is LD thinning necessary before inputting SNP information into the program, or can we directly include all SNP information? Thanks.

getian107 commented 7 months ago

We do not recommend any filtering/pruning. PRS-CSx is designed to model full genome-wide summary statistics.