Chunk #9 — METHODS — SIMULATIONS — Genotype data

Source: A comparison of approaches to account for uncertainty in analysis of imputed genotypes.
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For each 1-Mb region, we then took a random subset of 120 simulated chromosomes to generate a region-specific “pseudo HapMap”. We randomly paired (assuming Hardy-Weinberg equilibrium) a random subset of 2,000 chromosomes of the remaining 9,880 chromosomes to create 1,000 diploid pseudo individuals.