Table 4.

Different quality measures of the estimated line B proportions derived with ADMIXTURE with various levels of pruning based on linkage disequilibrium (r²) in the broiler data

Measure	r2 threshold for pruning
	0.1	0.3	0.5	0.7	0.9	No.
Number of SNPs	3392	15,144	29,892	41,376	48,905	55,729
Accuracy	0.839	0.914	0.927	0.927	0.925	0.918
Dispersion bias	0.970	1.140	1.138	1.128	1.115	1.090
Maximum error	0.094	0.073	0.066	0.064	0.068	0.070
RMSE	0.024	0.018	0.017	0.017	0.017	0.018

RMSE root mean squared error