Performance of ascertainment schemes explored across 12 population quintuplets and assessed as the fraction of all admixture graph topologies that are accepted under ascertainment (fit well with WR <3 SE) but rejected on all sites (fit poorly with WR >3 SE).

We also applied the binary classifier to determine if an ascertainment scheme produces unbiased or biased results (the latter cases are highlighted in bold and underlined text). The numbers of population quintuplets or ascertainment schemes affected by bias (according to this classifier) are shown in the rightmost column and in the bottom row, respectively. The composition of the population sets is shown above the table in an abbreviated way: arch, archaic humans, followed by the number of archaic groups; afr, Africans, followed by the number of African groups; nafr, non-Africans or Africans with substantial non-African admixture [67], followed by the number of such groups. The SNP counts correspond to sites polymorphic in larger collections of groups from which the analyzed population quintuplets were taken, see S2 Table. SNP counts vary across the population sets, and minimal and maximal values are shown in separate columns.
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