Table 1 Accuracy test results
From: Fast and accurate short-read alignment with hybrid hash-tree data structure
(a) HG002 | |||||||
True positives | True calls | False-pos | False-neg | Precision | Sensitivity | F-measure | |
Gatk | 3854404 | 3855258 | 54542 | 37091 | 0.9860 | 0.9905 | 0.9883 |
High | 3843485 | 3845450 | 38814 | 48010 | 0.9900 | 0.9877 | 0.9888 |
Low | 3840691 | 3841762 | 44070 | 50804 | 0.9887 | 0.9869 | 0.9878 |
(b) HG003 | |||||||
True positives | True calls | False-pos | False-neg | Precision | Sensitivity | F-measure | |
Gatk | 3795148 | 3795094 | 53773 | 36846 | 0.9860 | 0.9904 | 0.9882 |
High | 3785845 | 3786914 | 36724 | 46149 | 0.9904 | 0.9880 | 0.9892 |
Low | 3783096 | 3783268 | 41959 | 48898 | 0.9890 | 0.9872 | 0.881 |
(c) HG004 | |||||||
True positives | True calls | False-pos | False-neg | Precision | Sensitivity | F-measure | |
Gatk | 3819599 | 3819528 | 54716 | 37529 | 0.9859 | 0.9903 | 0.9881 |
High | 3808201 | 3809240 | 39099 | 48927 | 0.9898 | 0.9873 | 0.9886 |
Low | 3805555 | 3805753 | 43751 | 51573 | 0.9886 | 0.9866 | 0.9876 |