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Fig. 2 | BMC Genomics

Fig. 2

From: Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds

Fig. 2

Comparing QUAL ranked SNPs to VQSLOD ranked SNPs. VQSLOD scores were calculated from three different “gold standard” reference groups in Morgans (MOR) and Standardbreds (STD) using GATK VariantRecalibrator. Compared to QUAL scores (red line), high VQSLOD scored variants (top 10% variants by score) have a lower number of mismatched genotypes across the SNP50 BeadChip and variants discovered de novo

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