Table 3.

Coverage of the VPC by 95% confidence intervals (based on 500 simulations)

	Data from NB-sim			Data from CP-sim
Method/ True VPC	Low	Medium	High	Low	Medium	High
CP-fit	91.8 (0.32)	93.2 (0.32)	94.2 (0.19)	93.4 (0.32)	92.4 (0.33)	92.8 (0.20)
NB-fit	90.2 (0.31)	91.8 (0.32)	92.0 (0.18)	93.4 (0.31)	90.4 (0.31)	78.4 (0.19)
VST	92.0 (0.32)	91.6 (0.33)	92.4 (0.20)	94.8 (0.32)	89.6 (0.34)	84.0 (0.22)

Coverage percentage is shown at each level of true heritability score for data generated from NB-sim and CP-sim. Trues VPCs 0.2, 0.5 and 0.8 were considered as representatives for low, medium and high heritability. The values in parentheses show the average lengths of the intervals for the different cases. 200 bootstraps are used in each case