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Fig. 2 | BMC Genomics

Fig. 2

From: Comparing low-pass sequencing and genotyping for trait mapping in pharmacogenetics

Fig. 2

Comparison of imputation quality across platforms. Alleles were binned according to their minor allele frequency (as measured on the genotyping array) and imputation r2 averaged across all variants in the bin. For sequencing data, the array data was treated as ‘truth’ and imputation r2 computed by correlating imputed dosages to array genotypes. For the array data, imputation r2 for all genotyped variants was computed using a leave-one-out procedure implemented in minimac2

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