Table 1.

10 times repeated 5-fold cross-validated F1 score in five 1000 Genomes Project superpopulations using SVM, PCA or GTM

Ancestry	1000G code	PCA 8-NN	SVM 10 PCs	GTM 3 PCs	GTM 10 PCs
Africans	AFR	1.00±0.00	1.00±0.00	1.00±0.00	1.00±0.00
Admixed Americans	AMR	0.93±0.00	1.00±0.00	1.00±0.00	1.00±0.00
East Asians	EAS	1.00±0.00	1.00±0.00	1.00±0.00	1.00±0.00
Europeans	EUR	0.99±0.00	1.00±0.00	1.00±0.00	1.00±0.00
South Asians	SAS	0.93±0.01	1.00±0.00	1.00±0.00	1.00±0.00
Overall F1 score		0.98±0.00	1.00±0.00	1.00±0.00	1.00±0.00

SVM10 = support vector machine classification model using 10 principal components, PCA = k-nearest neighbours model based on 2D PCA map (k = 7), GTM{3,10,100} = bayesian classification model based on generative topographic mapping using 3, 10 or 100 principal components. Each value is an average with 95% confidence interval