Figure 8
From: Evaluation of variant identification methods for whole genome sequencing data in dairy cattle
Single nucleotide variant concordance (a) and single nucleotide variant concordance by array genotype (b) with variants identified using Platypus Primitives, Samtools, UnifiedGenotyper and Haplotype Caller (single vs. multi sample variant identification) and variants 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.