Fig. 6

Comparaison of linkage disequilibrium before and after imputation. Distribution of D’ values of linkage disequilibrium for the two SNP sets in the study: SNPchip (pink) and SNPseq (blue) and over different ranges of physical distances (panel a). Panel b represents the distribution of D’ values versus distances in a heat-plot with low densities in blue and high densities in yellow, respectively for SNPchip (left) and SNPseq (right). The red line is the average value of D’ weighted by frequencies for a distance window of 500kb. Panel c represents the distribution of D’ values as a function of distances between any two positions and the product of the corresponding minor allele frequencies in the pair of loci, with colour indicating the average value of D’ weighted by frequencies for a distance window of 500kb from low range (blue) to high range (yellow), respectively for SNPchip (left) and SNPseq (right)