Table 5 Comparison of 2-kupl and GATK-MuTect2 on indels using simulated WGS data
From: 2-kupl: mapping-free variant detection from DNA-seq data of matched samples
indels | 2-kupl | GATK-MuTect2 |
|---|---|---|
True positive | 3315 | 3620 |
False positive | 504 | 108 |
False negative | 750 | 445 |
Recall | 0.82 | 0.89 |
FDR | 0.13 | 0.02 |
Precision | 0.84 | 0.96 |
F1 score | 0.84 | 0.92 |