Local ancestry estimates by chromosome. Shown are chromosomal averaged local ancestry estimates for HapMap individuals using the RFMix software. Ancestry was estimated for each marker and then averaged across chromosomes. (A) Estimates for 87 HapMap ASW individuals. (B) Estimates for 86 HapMap MXL individuals. The reference samples for the European and African ancestries were HapMap CEU and YRI individuals, while the HGDP samples from the Americas were references for the Native American ancestry.