Table 4.

Concordance for minor allele genotypes with a MAF between 0 and 0.001.

Imputation	Phasing
	Beagle5.1	Eagle2.4.1	Eagle2.4.1*	SHAPEIT2	SHAPEIT2*
Beagle4.1	0.45	0.46	0.49	0.44	0.48
Beagle5.1	0.42	0.43	0.47	0.40	0.45
IMPUTE2	0.30	0.29	0.34	0.29	0.34
IMPUTE4	0.46	0.47	0.50	0.44	0.49
minimac3	0.48	0.48	0.51	0.46	0.50
minimac4	0.47	0.48	0.51	0.46	0.49

^*Indicates phasing with reference panel.