Table 1.

Imputed genotype dosage $R^2$ with the true genotypes

			Genotype	Number	of		Impute2 &
Info	SNP type	MAF	certainty	genotypes	(%)	Impute2	Kinpute
>0.4	Shared	>0.02	High	2 911 525	(59.7)	0.90	0.93
>0.4	Shared	>0.02	Low	469 987	(9.6)	0.32	0.68
>0.4	Shared	$\le$0.02	High	387 932	(7.9)	0.90	0.94
>0.4	Shared	$\le$0.02	Low	15 460	(0.3)	0.25	0.70
>0.4	Private	>0.02	High	201 672	(4.1)	0.89	0.92
>0.4	Private	>0.02	Low	31 896	(0.7)	0.35	0.66
>0.4	Private	$\le$0.02	High	54 182	(1.1)	0.53	0.66
>0.4	Private	$\le$0.02	Low	3178	(0.1)	0.07	0.47
<0.4	Shared	>0.02	High	235 481	(4.8)	0.63	0.80
<0.4	Shared	>0.02	Low	106 855	(2.2)	0.28	0.73
<0.4	Shared	$\le$0.02	High	284 529	(5.8)	0.61	0.77
<0.4	Shared	$\le$0.02	Low	8751	(0.2)	0.13	0.0
<0.4	Private	>0.02	High	28 684	(0.6)	0.63	0.82
<0.4	Private	>0.02	Low	7988	(0.2)	0.34	0.76
<0.4	Private	$\le$0.02	High	123 111	(2.5)	0.45	0.52
<0.4	Private	$\le$0.02	Low	5913	(0.1)	0.06	0.36

Note: Bold face indicate larger R² values.