Table 3.

Accuracy and bias of predicted GBVs in Data III

Method			Trait A	Trait B	Trait C
MCBayes	π = 0	rTBV,pGBV	0.766 ± 0.058	0.500 ± 0.127	0.322 ± 0.082
		bTBV,pGBV	0.977 ± 0.048	0.998 ± 0.356	0.967 ± 0.773
	0 < π <1	rTBV,pGBV	0.723 ± 0.069	0.503 ± 0.141	0.202 ± 0.119
		bTBV,pGBV	1.065 ± 0.076	1.195 ± 0.530	0.799 ± 0.523
varBayes	π = 0	rTBV,pGBV	0.726 ± 0.072	0.447 ± 0.131	0.261 ± 0.134
		bTBV,pGBV	0.984 ± 0.052	0.582 ± 0.241	0.383 ± 0.181
	0 < π <1	rTBV,pGBV	0.679 ± 0.081	0.387 ± 0.115	0.228 ± 0.112
		bTBV,pGBV	0.840 ± 0.068	0.389 ± 0.132	0.240 ± 0.110
single-trait	π =0	rTBV,pGBV	0.760 ± 0.058	0.345 ± 0.070	0.336 ± 0.068
(MCBayes)		bTBV,pGBV	0.965 ± 0.047	0.931 ± 0.368	0.969 ± 0.510
	0 < π <1	rTBV,pGBV	0.758 ± 0.057	0.362 ± 0.105	0.354 ± 0.101
		bTBV,pGBV	1.086 ± 0.068	1.455 ± 1.401	1.251 ± 1.310

Averages and standard errors based on 100 replicates of simulated data are listed for prediction accuracy, r_pGBV,TBV, and bias, b_pGBV,TBV, of each trait. For the settings of prior probability that a SNP has zero effect, π, see Table 1.