Difference between binary prediction and true exposure with implications for forecasting tournaments
GCTA-SBLUP reads b, fits the model based on u, and output the BLUP SNP effect in the scale of b. So, the output can directly be used to compute the profile score using PLINK --score. LD r 2 smaller than this value will be ignored in the calculated. The LD score generated from this option can be used for stratifying SNPs (see GREML-LDMS). The output from this analysis can be used for LDSC regression analysis.