Figure 2.

Phase accuracy and computation time for autosomal UK Biobank SNP array data

Switch error rate and wall clock computation time for Beagle 5.2 and SHAPEIT 4.2.1 when phasing 5,000, 15,000, 50,000, 150,000, and 485,301 UK Biobank individuals genotyped for 711,651 autosomal markers with default parameter values. Sample size is plotted on the log scale. Switch error rate is calculated with heterozygous genotypes in 1,064 offspring whose phase is determined from parental data that were excluded from the phasing analysis. All analyses were run with 20 threads on a computer server with 20 CPU cores and 256 GB memory.