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Table 9 Comparison of EAGER to a benchmark data set from GIAB

From: EAGER: efficient ancient genome reconstruction

Pipeline GIAB Sensitivity GIAB Specificity
GCAT 85.21 % 99.9975 %
EAGER 88.21 % 99.9963 %
PALEOMIX 82.83 % 99.9962 %
  1. GCAT is the result of GCAT using BWA followed by the GATK Unified Genotyper. EAGER is the result that was produced using EAGER and also BWA with standard parameters for the Unified Genotyper of GATK. PALEOMIX is the result that was produced using PALEOMIX using BWA and the SAMtools mpileup method to get genotypes