Figure 2
From: Imputation of sequence level genotypes in the Franches-Montagnes horse breed
Concordance between true and imputed genotypes. The concordance was calculated in a cross-validation experiment comprising 26 FM horses for which 50 k SNP-chip and genome sequence data were available. The SNPs were divided into six concordance classes depending on the proportion of horses, which had correctly imputed genotypes. Roughly half of the SNPs showed perfect concordance between experimental and imputed genotypes and only very few SNPs had incorrect genotypes in more than 20% of the horses. Note the lower concordance of true and imputed SNPs on ECA12.