10−7 (N=16, < 0.1%); (8) significantly associated with batch at p < 10−7 (N=17, < 0.1%); and (9) markers with more than 2 heterozygous calls if they were on the X chromosome in male samples or from mitochrondrial DNA in the total sample (N=160, < 0.1%). A total of 32,153 markers, 5.7% of the markers attempted, failed one or more of these QC filters, leaving 527,829 markers that passed all QC filters.
