Sites
Genotypes
Site mismatch rate
Genotype mismatch rate
FreeBayes 1.19x105 1.05x107 1.03x10-2 2.39x10-3
HaplotypeCaller 2.24x106 1.87x108 2.41x10-1 1.18x10-2
SAMtools 4.59x105 4.16x107 5.36x10-2 3.08x10-3
UnifiedGenotyper 3.49x106 2.86x108 1.51x10-1 2.03x10-2
VarScan 8.79x104 4.41x106 9.79x10-4 3.97x10-4