Table 1. VIGoR parameters used for to tune BayesB hyperparameters.

VIGoR Parameter	explanation	Prior values
Nu	Inverse-chi-squared df	4, 8, 12
Kappa	Proportion of SNPs with effect > 0 (1-π)	0.05, 0.01, 0.001
f	Inbreeding coefficient	0.10
Mvar	Proportion of phenotypic variance explained by SNPs	0.50