The SNP density targeted in our simulations was motivated by analyses of existing GWA studies. Increased densities should result in more information about LD to increase imputation accuracies. For this reason, we plotted results by imputation accuracies in addition to the tables which integrate over the distributions of LD patterns and allele frequencies. For the same reason, our results should be applicable to imputation from low-coverage sequencing data. Although the distributions of allele frequencies of interrogated SNPs will shift to lower values, and imputation accuracies may vary in a manner different from those encountered in this study, our results plotted by these features (frequency and accuracy) should apply to other raw data sources. (Our tabulated summaries may in fact change under these different conditions, since the results are integrated over particular distributions of allele frequencies and accuracies, dependent on the simulations and imputation methods employed herein.)
