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t-distributed stochastic neighbor embedding (tSNE) was computed from the variance-standardized genetic relationship matrix generated using A) SNPs and indels combined, B) indels only and C) SNPs only. Variant data (from chromosome 1) were pruned for linkage disequilibrium and only samples with less than 20% missing genotypes (n = 3,008) were kept. DRC: Democratic Republic of Congo
