Extended Data Fig. 5: P. falciparum and P. vivax coverage simulations.
From: Ancient Plasmodium genomes shed light on the history of human malaria
Principal components analysis showing impact of SNP coverage on population ascertainment in ancient P. falciparum (a-c) and ancient P. vivax (d-f) datasets. Diamonds reflect the PCA position of one randomly selected modern strain from each population, which was downsampled to the following coverage levels: a. and d. 500 segregating SNPs, b. and e. 1,500 segregating SNPs, and c. and f. 5,000 segregating SNPs. Downsampled strains were projected onto modern clones using smartPCA. Colored polygons delineate the spatial distribution of 50 downsampled replicates for each population/coverage combination.