Table A5.

Comparative performance of genomic prediction models in terms of Pearson´s correlation (COR) (A), Normalized Root Mean Square Error (NRMSE) (B), Percentage of Matching in top 10% (PM_10) (c), and top 20% (PM_20) (D) for TPE_1_2022_2023, TPE_2_2022_2023, and TPE_3_2021_2022 data sets under Incomplete Block Design (IBD Cross-Validation and Random Cross-Validation.

DATA TPE	METRIC	CV	MODEL	MIN	MEAN	MEDIAN	MAX	SD	RE (%)
1_2022_2023	COR	IBD	GBLUP	0.815	0.856	0.854	0.881	0.020	0.090
1_2022_2023	COR	IBD	GBLUP_CE	0.763	0.831	0.825	0.900	0.042	3.053
1_2022_2023	COR	IBD	GBLUP_CE_Abs	0.780	0.824	0.824	0.881	0.035	3.937
1_2022_2023	COR	IBD	GBLUP_CE_mean	0.789	0.834	0.816	0.886	0.037	2.729
1_2022_2023	COR	IBD	GBLUP_CE_Res	0.799	0.836	0.821	0.894	0.036	2.457
1_2022_2023	COR	IBD	GBLUP_TRN	0.818	0.856	0.856	0.884	0.019	0.000
1_2022_2023	COR	Random	GBLUP	0.796	0.829	0.835	0.848	0.019	2.808
1_2022_2023	COR	Random	GBLUP_CE	0.711	0.793	0.813	0.841	0.044	7.475
1_2022_2023	COR	Random	GBLUP_CE_Abs	0.717	0.796	0.809	0.844	0.046	6.971
1_2022_2023	COR	Random	GBLUP_CE_mean	0.742	0.804	0.813	0.834	0.031	5.929
1_2022_2023	COR	Random	GBLUP_CE_Res	0.751	0.814	0.814	0.846	0.029	4.641
1_2022_2023	COR	Random	GBLUP_TRN	0.823	0.852	0.851	0.884	0.017	0.000
1_2022_2023	NRMSE	IBD	GBLUP	0.480	0.534	0.536	0.622	0.047	1.620
1_2022_2023	NRMSE	IBD	GBLUP_CE	0.538	0.641	0.660	0.735	0.069	22.029
1_2022_2023	NRMSE	IBD	GBLUP_CE_Abs	0.570	0.668	0.669	0.764	0.061	27.138
1_2022_2023	NRMSE	IBD	GBLUP_CE_mean	0.541	0.642	0.650	0.730	0.062	22.126
1_2022_2023	NRMSE	IBD	GBLUP_CE_Res	0.517	0.629	0.651	0.743	0.071	19.691
1_2022_2023	NRMSE	IBD	GBLUP_TRN	0.467	0.526	0.518	0.586	0.036	0.000
1_2022_2023	NRMSE	Random	GBLUP	0.531	0.566	0.559	0.608	0.027	7.270
1_2022_2023	NRMSE	Random	GBLUP_CE	0.662	0.698	0.699	0.756	0.027	32.271
1_2022_2023	NRMSE	Random	GBLUP_CE_Abs	0.629	0.699	0.700	0.766	0.040	32.349
1_2022_2023	NRMSE	Random	GBLUP_CE_mean	0.614	0.674	0.675	0.727	0.038	27.727
1_2022_2023	NRMSE	Random	GBLUP_CE_Res	0.572	0.646	0.651	0.724	0.042	22.348
1_2022_2023	NRMSE	Random	GBLUP_TRN	0.467	0.528	0.535	0.568	0.029	0.000
1_2022_2023	PM_10	IBD	GBLUP	55.102	61.020	61.224	73.469	5.965	−1.003
1_2022_2023	PM_10	IBD	GBLUP_CE	42.857	55.306	56.122	73.469	9.448	9.225
1_2022_2023	PM_10	IBD	GBLUP_CE_Abs	42.857	53.673	56.122	63.265	8.499	12.548
1_2022_2023	PM_10	IBD	GBLUP_CE_mean	42.857	55.714	58.163	67.347	8.714	8.425
1_2022_2023	PM_10	IBD	GBLUP_CE_Res	48.980	59.184	55.102	73.469	8.106	2.069
1_2022_2023	PM_10	IBD	GBLUP_TRN	55.102	60.408	61.224	63.265	2.395	0.000
1_2022_2023	PM_10	Random	GBLUP	38.776	58.367	59.184	69.388	8.616	−10.490
1_2022_2023	PM_10	Random	GBLUP_CE	38.776	51.020	50.000	69.388	11.095	2.400
1_2022_2023	PM_10	Random	GBLUP_CE_Abs	28.571	52.857	56.122	71.429	12.707	−1.158
1_2022_2023	PM_10	Random	GBLUP_CE_mean	32.653	51.020	53.061	61.224	8.870	2.400
1_2022_2023	PM_10	Random	GBLUP_CE_Res	40.816	55.918	57.143	71.429	8.507	−6.569
1_2022_2023	PM_10	Random	GBLUP_TRN	40.816	52.245	48.980	67.347	10.371	0.000
1_2022_2023	PM_20	IBD	GBLUP	60.606	67.576	69.697	72.727	4.959	1.345
1_2022_2023	PM_20	IBD	GBLUP_CE	54.545	65.455	66.667	69.697	4.781	4.630
1_2022_2023	PM_20	IBD	GBLUP_CE_Abs	48.485	62.424	62.121	72.727	6.577	9.709
1_2022_2023	PM_20	IBD	GBLUP_CE_mean	54.545	63.333	63.636	69.697	4.391	8.134
1_2022_2023	PM_20	IBD	GBLUP_CE_Res	51.515	63.030	63.636	72.727	5.496	8.654
1_2022_2023	PM_20	IBD	GBLUP_TRN	60.606	68.485	69.697	78.788	5.190	0.000
1_2022_2023	PM_20	Random	GBLUP	52.525	62.727	64.141	73.737	7.399	−0.644
1_2022_2023	PM_20	Random	GBLUP_CE	53.535	59.899	61.111	68.687	5.174	4.047
1_2022_2023	PM_20	Random	GBLUP_CE_Abs	49.495	58.485	58.586	67.677	6.032	6.563
1_2022_2023	PM_20	Random	GBLUP_CE_mean	51.515	60.404	60.101	66.667	4.898	3.177
1_2022_2023	PM_20	Random	GBLUP_CE_Res	55.556	61.818	62.121	72.727	5.710	0.817
1_2022_2023	PM_20	Random	GBLUP_TRN	51.515	62.323	63.131	71.717	6.442	0.000
2_2022_2023	COR	IBD	GBLUP	0.826	0.853	0.853	0.879	0.017	−0.054
2_2022_2023	COR	IBD	GBLUP_CE	0.781	0.811	0.806	0.863	0.026	5.137
2_2022_2023	COR	IBD	GBLUP_CE_Abs	0.739	0.806	0.813	0.859	0.035	5.770
2_2022_2023	COR	IBD	GBLUP_CE_mean	0.787	0.817	0.821	0.857	0.025	4.361
2_2022_2023	COR	IBD	GBLUP_CE_Res	0.760	0.813	0.822	0.859	0.035	4.796
2_2022_2023	COR	IBD	GBLUP_TRN	0.821	0.852	0.854	0.879	0.017	0.000
2_2022_2023	COR	Random	GBLUP	0.809	0.844	0.847	0.873	0.020	3.416
2_2022_2023	COR	Random	GBLUP_CE	0.756	0.803	0.803	0.833	0.023	8.682
2_2022_2023	COR	Random	GBLUP_CE_Abs	0.766	0.810	0.814	0.838	0.023	7.748
2_2022_2023	COR	Random	GBLUP_CE_mean	0.755	0.812	0.814	0.857	0.030	7.541
2_2022_2023	COR	Random	GBLUP_CE_Res	0.785	0.816	0.814	0.854	0.023	7.041
2_2022_2023	COR	Random	GBLUP_TRN	0.847	0.873	0.867	0.904	0.020	0.000
2_2022_2023	NRMSE	IBD	GBLUP	0.481	0.547	0.529	0.631	0.053	2.124
2_2022_2023	NRMSE	IBD	GBLUP_CE	0.623	0.720	0.747	0.779	0.055	34.472
2_2022_2023	NRMSE	IBD	GBLUP_CE_Abs	0.629	0.724	0.730	0.813	0.064	35.132
2_2022_2023	NRMSE	IBD	GBLUP_CE_mean	0.623	0.713	0.716	0.782	0.051	33.050
2_2022_2023	NRMSE	IBD	GBLUP_CE_Res	0.620	0.702	0.704	0.783	0.054	31.088
2_2022_2023	NRMSE	IBD	GBLUP_TRN	0.476	0.536	0.535	0.595	0.038	0.000
2_2022_2023	NRMSE	Random	GBLUP	0.528	0.578	0.570	0.683	0.050	13.901
2_2022_2023	NRMSE	Random	GBLUP_CE	0.702	0.741	0.746	0.783	0.028	46.186
2_2022_2023	NRMSE	Random	GBLUP_CE_Abs	0.703	0.745	0.751	0.798	0.033	46.998
2_2022_2023	NRMSE	Random	GBLUP_CE_mean	0.682	0.737	0.752	0.782	0.034	45.376
2_2022_2023	NRMSE	Random	GBLUP_CE_Res	0.670	0.728	0.732	0.769	0.031	43.464
2_2022_2023	NRMSE	Random	GBLUP_TRN	0.428	0.507	0.508	0.582	0.051	0.000
2_2022_2023	PM_10	IBD	GBLUP	42.857	53.878	53.061	73.469	9.187	−4.924
2_2022_2023	PM_10	IBD	GBLUP_CE	38.776	48.163	45.918	65.306	7.587	6.356
2_2022_2023	PM_10	IBD	GBLUP_CE_Abs	30.612	48.367	47.959	63.265	10.758	5.907
2_2022_2023	PM_10	IBD	GBLUP_CE_mean	36.735	47.143	47.959	61.224	7.959	8.658
2_2022_2023	PM_10	IBD	GBLUP_CE_Res	42.857	49.592	48.980	61.224	6.164	3.292
2_2022_2023	PM_10	IBD	GBLUP_TRN	38.776	51.224	50.000	73.469	9.250	0.000
2_2022_2023	PM_10	Random	GBLUP	30.612	48.776	47.959	69.388	10.861	8.368
2_2022_2023	PM_10	Random	GBLUP_CE	28.571	47.959	46.939	63.265	11.312	10.213
2_2022_2023	PM_10	Random	GBLUP_CE_Abs	32.653	46.939	48.980	61.224	11.137	12.609
2_2022_2023	PM_10	Random	GBLUP_CE_mean	24.490	45.102	44.898	63.265	12.224	17.195
2_2022_2023	PM_10	Random	GBLUP_CE_Res	28.571	47.959	48.980	61.224	10.680	10.213
2_2022_2023	PM_10	Random	GBLUP_TRN	36.735	52.857	54.082	69.388	9.546	0.000
2_2022_2023	PM_20	IBD	GBLUP	58.163	65.816	64.796	75.510	6.108	1.445
2_2022_2023	PM_20	IBD	GBLUP_CE	48.980	63.878	68.878	72.449	8.807	4.524
2_2022_2023	PM_20	IBD	GBLUP_CE_Abs	51.020	65.612	68.878	74.490	9.064	1.761
2_2022_2023	PM_20	IBD	GBLUP_CE_mean	42.857	64.388	69.388	72.449	10.209	3.696
2_2022_2023	PM_20	IBD	GBLUP_CE_Res	52.041	64.388	66.327	73.469	7.983	3.696
2_2022_2023	PM_20	IBD	GBLUP_TRN	60.606	66.768	64.646	80.808	7.086	0.000
2_2022_2023	PM_20	Random	GBLUP	52.041	63.367	64.796	78.571	8.296	7.438
2_2022_2023	PM_20	Random	GBLUP_CE	55.102	64.082	61.735	73.469	6.679	6.241
2_2022_2023	PM_20	Random	GBLUP_CE_Abs	58.163	65.408	65.816	73.469	6.131	4.086
2_2022_2023	PM_20	Random	GBLUP_CE_mean	51.020	63.980	66.327	73.469	7.038	6.410
2_2022_2023	PM_20	Random	GBLUP_CE_Res	57.143	62.755	63.265	69.388	4.935	8.486
2_2022_2023	PM_20	Random	GBLUP_TRN	57.576	68.081	69.192	75.758	5.537	0.000
3_2021_2022	COR	IBD	GBLUP	0.553	0.697	0.710	0.777	0.067	16.619
3_2021_2022	COR	IBD	GBLUP_CE	0.545	0.674	0.681	0.765	0.061	20.506
3_2021_2022	COR	IBD	GBLUP_CE_Abs	0.563	0.666	0.668	0.762	0.050	22.112
3_2021_2022	COR	IBD	GBLUP_CE_mean	0.584	0.678	0.678	0.752	0.052	19.807
3_2021_2022	COR	IBD	GBLUP_CE_Res	0.557	0.688	0.690	0.771	0.060	18.106
3_2021_2022	COR	IBD	GBLUP_TRN	0.723	0.813	0.806	0.880	0.044	0.000
3_2021_2022	COR	Random	GBLUP	0.574	0.716	0.728	0.809	0.067	−0.909
3_2021_2022	COR	Random	GBLUP_CE	0.549	0.671	0.681	0.760	0.061	5.734
3_2021_2022	COR	Random	GBLUP_CE_Abs	0.517	0.662	0.669	0.750	0.065	7.245
3_2021_2022	COR	Random	GBLUP_CE_mean	0.583	0.681	0.671	0.774	0.060	4.249
3_2021_2022	COR	Random	GBLUP_CE_Res	0.589	0.687	0.692	0.764	0.054	3.223
3_2021_2022	COR	Random	GBLUP_TRN	0.594	0.710	0.725	0.785	0.069	0.000
3_2021_2022	NRMSE	IBD	GBLUP	0.627	0.763	0.736	0.873	0.077	−2.867
3_2021_2022	NRMSE	IBD	GBLUP_CE	0.645	0.777	0.781	0.882	0.069	−1.053
3_2021_2022	NRMSE	IBD	GBLUP_CE_Abs	0.650	0.783	0.783	0.881	0.066	−0.300
3_2021_2022	NRMSE	IBD	GBLUP_CE_mean	0.659	0.774	0.783	0.824	0.052	−1.490
3_2021_2022	NRMSE	IBD	GBLUP_CE_Res	0.642	0.780	0.768	0.942	0.086	−0.644
3_2021_2022	NRMSE	IBD	GBLUP_TRN	0.540	0.785	0.770	1.090	0.151	0.000
3_2021_2022	NRMSE	Random	GBLUP	0.617	0.747	0.748	0.879	0.087	−18.209
3_2021_2022	NRMSE	Random	GBLUP_CE	0.697	0.773	0.762	0.858	0.055	−15.380
3_2021_2022	NRMSE	Random	GBLUP_CE_Abs	0.708	0.778	0.776	0.882	0.050	−14.896
3_2021_2022	NRMSE	Random	GBLUP_CE_mean	0.661	0.762	0.773	0.830	0.054	−16.607
3_2021_2022	NRMSE	Random	GBLUP_CE_Res	0.691	0.773	0.757	0.909	0.065	−15.412
3_2021_2022	NRMSE	Random	GBLUP_TRN	0.774	0.914	0.924	1.014	0.082	0.000
3_2021_2022	PM_10	IBD	GBLUP	9.091	42.727	45.455	63.636	16.625	25.532
3_2021_2022	PM_10	IBD	GBLUP_CE	18.182	40.000	40.909	63.636	13.687	34.091
3_2021_2022	PM_10	IBD	GBLUP_CE_Abs	9.091	39.091	45.455	63.636	14.876	37.209
3_2021_2022	PM_10	IBD	GBLUP_CE_mean	18.182	38.182	36.364	63.636	16.487	40.476
3_2021_2022	PM_10	IBD	GBLUP_CE_Res	18.182	40.909	36.364	63.636	16.735	31.111
3_2021_2022	PM_10	IBD	GBLUP_TRN	27.273	53.636	54.545	81.818	14.501	0.000
3_2021_2022	PM_10	Random	GBLUP	27.273	40.000	40.909	54.545	12.272	2.273
3_2021_2022	PM_10	Random	GBLUP_CE	18.182	40.909	45.455	54.545	11.539	0.000
3_2021_2022	PM_10	Random	GBLUP_CE_Abs	27.273	42.727	45.455	54.545	9.630	−4.255
3_2021_2022	PM_10	Random	GBLUP_CE_mean	18.182	40.000	40.909	54.545	12.999	2.273
3_2021_2022	PM_10	Random	GBLUP_CE_Res	18.182	40.000	36.364	63.636	14.342	2.273
3_2021_2022	PM_10	Random	GBLUP_TRN	9.091	40.909	45.455	54.545	15.599	0.000
3_2021_2022	PM_20	IBD	GBLUP	22.727	47.727	50.000	63.636	10.978	21.905
3_2021_2022	PM_20	IBD	GBLUP_CE	22.727	45.909	45.455	59.091	10.595	26.733
3_2021_2022	PM_20	IBD	GBLUP_CE_Abs	22.727	44.091	45.455	54.545	9.352	31.959
3_2021_2022	PM_20	IBD	GBLUP_CE_mean	27.273	45.000	45.455	63.636	10.376	29.293
3_2021_2022	PM_20	IBD	GBLUP_CE_Res	31.818	48.182	47.727	72.727	11.579	20.755
3_2021_2022	PM_20	IBD	GBLUP_TRN	40.909	58.182	59.091	77.273	10.884	0.000
3_2021_2022	PM_20	Random	GBLUP	40.909	54.091	54.545	68.182	8.951	−1.681
3_2021_2022	PM_20	Random	GBLUP_CE	36.364	50.909	50.000	68.182	9.535	4.464
3_2021_2022	PM_20	Random	GBLUP_CE_Abs	40.909	52.273	50.000	68.182	8.368	1.739
3_2021_2022	PM_20	Random	GBLUP_CE_mean	40.909	52.727	50.000	68.182	9.141	0.862
3_2021_2022	PM_20	Random	GBLUP_CE_Res	40.909	54.091	54.545	68.182	8.145	−1.681
3_2021_2022	PM_20	Random	GBLUP_TRN	40.909	53.182	50.000	68.182	9.104	0.000