PLINK2

GPU accelerated population genetics statistics using pg_gpu

Population genetics summary statistics-- diversity, divergence, linkage disequilibrium, selection scans, and dimensionality reduction-- are fundamental across human, agricultural, and ecological genomics. As whole-genome sequencing datasets have grown to hundreds of thousands of individuals, the cost of computing these statistics on conventional CPU implementations has become a major bottleneck: windowed scans of a single chromosome arm can take hours to days, and computation of pairwise...