Experimental approach. (a) Parental genomes were haplotype-resolved using a combination of direct molecular methods and population-based phasing. Embryo biopsies were genotyped using a rapid SNP-array protocol and processed using information derived from parents and sibling embryos to infer a sparse set of ‘Parental Support’ (PS) genotypes. (b) Prediction of the embryo genome. Informative sites from PS embryo genotyping were combined with haplotype-resolved parental genome sequences to predict the whole genome sequence of the embryo.