Genotype Imputation with Millions of Reference Samples

We present a genotype imputation method that scales to millions of reference samples. The imputation method, based on the Li and Stephens model and implemented in Beagle v.4.1, is parallelized and memory efficient, making it well suited to multi-core computer processors. It achieves fast, accurate, and memory-efficient genotype imputation by restricting the probability model to markers that are genotyped in the target samples and by performing linear interpolation to impute ungenotyped variants.

Source: The American Journal of Human Genetics - January 7, 2016 Category: Genetics & Stem Cells Authors: Brian L. Browning, Sharon R. Browning Tags: Article Source Type: research