Figure 6. Application of the trained CNN to the Altai Denisovan and Altai Neanderthal, 1000 genomes YRI populations, and IGDP Melanesians.

The CNN was applied to overlapping 100 kbp windows, moving along the chromosome in steps of size 20 kbp. The CNN was trained using only AI simulations with selected mutation having allele frequency > 25%, and subsequently calibrated with resampled neutral:sweep:AI ratios of 1:0.1:0.02.