genotypes in this homogeneous European cluster for the following reasons: 5499 were monomorphic; 2102 for completion rate <95%; 132 894 for MAF <0.01; 7734 for HWE P < 0.005; and 89 for Fst > 0.02. Following this QC step, there were 842 348 SNPs available for association analysis. In this final SNP-based edit, six more individuals had a genotype completion rate of <95%. Merging diagnostic information with genotype information to determine informative families yielded 1369 families with complete genotype data for parents and offspring; with at least one genotyped offspring carrying an ASD diagnosis (16 families had more than one genotyped, affected child).
