In this context, the correlation coefficient r2 is the appropriate measure of LD rather than D'. The goal is to distinguish among SNPs that are statistically correlated, so that the disease association signal at each bin member in fact can be statistically explained by the LD between the SNPs, yet the biological basis of the observed association may potentially be due to any member of the bin. Our approach therefore allows us to filter out bin members to narrow down to the most likely biologically causative variants.
