Fig. 2

StrainGR discriminates between highly similar strains and reports ACNI which strongly correlates with true ANI. a For all synthetic sample pairs with the same StrainGST reference called, the Jaccard gap similarity index and pairwise ACNI are plotted. Circle size indicates the percentage of the reference genome that was callable across both strains being compared. Red circles indicate comparisons between identical strains. b For all pairs, the true ANI between spiked isolates is plotted against the ACNI, as estimated by StrainGR. The dashed line indicates parity between these metrics. Pairs of strains could have 0–10,000 SNV differences