Coverage of GWAS

| category Bioinformatics  | tag NGS

naive estimate of coverage of all SNPs in the genome (G)

$\frac{T+L}{R}$

R: a reference set of SNPs T: tag SNPs L: SNPs are in LD with a SNP in T

corrected genomewide coverage

$\frac{\frac{L}{R-T}(G-T)+T}{G}$

G: the number of common SNPs in the genome.

Reference

• Jeffrey C Barrett & Lon R Cardon. Evaluating coverage of genome-wide association studies. NATURE GENETICS, VOLUME 38, NUMBER 6, PAGE 656-662, JUNE 2006.