Figure 9
From: Evaluation of variant identification methods for whole genome sequencing data in dairy cattle
Genotype concordance between genotypes identified using Platypus Primitives, Samtools, UnifiedGenotyper and HaplotypeCaller (single vs. multi sample variant identification) and genotypes identified with the Illumina BovineHD BeadChip® as a gold standard. Indel realignment and base quality score recalibration were conducted for both single and multi sample calling results.