Reply to Mafessoni and Prufer: Inferences with and without singleton site patterns [Biological Sciences]

Mafessoni and Prüfer (1) (MP) make three points: (i) Low variation among Neanderthal genomes implies a small population, (ii) Neanderthal–Denisovan divergence is small relative to archaic-modern, and (iii) an analysis including singleton site patterns (in which the derived allele appears only once) supports a small Neanderthal population and a more...

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