From: A study on fast calling variants from next-generation sequencing data using decision tree
AF | Â | benchmark (high-conf) | Fuwa | Platypus | GATK-UG | GATK-HC | SAMtools |
---|---|---|---|---|---|---|---|
≤5% | count | 282,869 | 207,098 | 201,577 | 210,190 | 209,119 | 207,187 |
ratio (%) | – | 73.21 | 71.26 | 74.31 | 73.93 | 73.24 | |
≤1% | count | 128,661 | 80,895 | 78,908 | 81,758 | 81,417 | 80,956 |
ratio (%) | – | 62.87 | 61.33 | 63.55 | 63.28 | 62.92 | |
≤0.5% | count | 92,309 | 55,630 | 54,280 | 56,137 | 55,928 | 55,646 |
ratio (%) | – | 60.26 | 58.80 | 60.81 | 60.59 | 60.28 | |
≤0.1% | count | 37,563 | 23,695 | 23,112 | 23,863 | 23,795 | 23,688 |
ratio (%) | – | 63.08 | 61.53 | 63.53 | 63.35 | 63.06 |