PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
81951-82000 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I16_PLUS | segdup | hetalt | 0.0000 | 25.0000 | 0.0000 | 0.0000 | 1 | 3 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | segdup | homalt | 60.0000 | 63.1579 | 57.1429 | 87.7907 | 12 | 7 | 12 | 9 | 5 | 55.5556 | |
| anovak-vg | INDEL | I1_5 | segdup | * | 58.1085 | 58.4514 | 57.7697 | 94.2442 | 619 | 440 | 632 | 462 | 397 | 85.9307 | |
| anovak-vg | INDEL | I1_5 | segdup | het | 40.6839 | 28.2528 | 72.6496 | 97.2794 | 152 | 386 | 170 | 64 | 21 | 32.8125 | |
| anovak-vg | INDEL | I1_5 | segdup | hetalt | 0.0000 | 27.0833 | 0.0000 | 0.0000 | 13 | 35 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | segdup | homalt | 68.8866 | 95.9831 | 53.7209 | 91.7355 | 454 | 19 | 462 | 398 | 376 | 94.4724 | |
| astatham-gatk | INDEL | C16_PLUS | segdup | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | segdup | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | segdup | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | ti | segdup | * | 97.8325 | 97.8809 | 97.7842 | 91.7442 | 19123 | 414 | 19020 | 431 | 163 | 37.8190 | |
| anovak-vg | SNP | ti | segdup | het | 97.2381 | 97.4480 | 97.0290 | 93.2429 | 11723 | 307 | 11659 | 357 | 90 | 25.2101 | |
| anovak-vg | SNP | ti | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 2 | 0 | 0 | 0 | |||
| anovak-vg | SNP | ti | segdup | homalt | 98.8024 | 98.6009 | 99.0047 | 87.1313 | 7400 | 105 | 7361 | 74 | 73 | 98.6486 | |
| bgallagher-sentieon | INDEL | I6_15 | segdup | * | 98.8506 | 98.2857 | 99.4220 | 92.6819 | 172 | 3 | 172 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | segdup | het | 98.1818 | 97.5904 | 98.7805 | 93.7690 | 81 | 2 | 81 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | segdup | hetalt | 98.8764 | 97.7778 | 100.0000 | 89.2421 | 44 | 1 | 44 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 92.6448 | 47 | 0 | 47 | 0 | 0 | ||
| cchapple-custom | INDEL | * | segdup | * | 99.1318 | 98.9045 | 99.3602 | 94.4519 | 2528 | 28 | 2640 | 17 | 10 | 58.8235 | |
| cchapple-custom | INDEL | * | segdup | het | 99.0552 | 98.7040 | 99.4090 | 95.0259 | 1447 | 19 | 1682 | 10 | 3 | 30.0000 | |
| cchapple-custom | INDEL | * | segdup | hetalt | 0.0000 | 93.8462 | 0.0000 | 0.0000 | 122 | 8 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | * | segdup | homalt | 99.5843 | 99.8958 | 99.2746 | 93.0445 | 959 | 1 | 958 | 7 | 7 | 100.0000 | |
| cchapple-custom | INDEL | C16_PLUS | segdup | * | 0.0000 | 0.0000 | 100.0000 | 97.0149 | 0 | 0 | 2 | 0 | 0 | ||
| cchapple-custom | INDEL | C16_PLUS | segdup | het | 0.0000 | 0.0000 | 100.0000 | 97.8261 | 0 | 0 | 1 | 0 | 0 | ||
| cchapple-custom | INDEL | C16_PLUS | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| cchapple-custom | INDEL | C16_PLUS | segdup | homalt | 0.0000 | 0.0000 | 100.0000 | 95.2381 | 0 | 0 | 1 | 0 | 0 | ||
| cchapple-custom | INDEL | C1_5 | segdup | * | 0.0000 | 0.0000 | 100.0000 | 99.0545 | 0 | 0 | 21 | 0 | 0 | ||
| cchapple-custom | INDEL | C1_5 | segdup | het | 0.0000 | 0.0000 | 100.0000 | 99.3518 | 0 | 0 | 11 | 0 | 0 | ||
| cchapple-custom | INDEL | C1_5 | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| cchapple-custom | INDEL | C1_5 | segdup | homalt | 0.0000 | 0.0000 | 100.0000 | 98.0916 | 0 | 0 | 10 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | segdup | * | 99.5103 | 99.8567 | 99.1663 | 89.5899 | 19509 | 28 | 19507 | 164 | 6 | 3.6585 | |
| bgallagher-sentieon | SNP | ti | segdup | het | 99.2686 | 99.8587 | 98.6854 | 90.5804 | 12013 | 17 | 12011 | 160 | 2 | 1.2500 | |
| bgallagher-sentieon | SNP | ti | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 98.5185 | 2 | 0 | 2 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | segdup | homalt | 99.9000 | 99.8534 | 99.9467 | 87.4231 | 7494 | 11 | 7494 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | segdup | * | 99.4858 | 99.8125 | 99.1612 | 91.3387 | 8516 | 16 | 8512 | 72 | 6 | 8.3333 | |
| bgallagher-sentieon | SNP | tv | segdup | het | 99.2561 | 99.7541 | 98.7631 | 92.1695 | 5274 | 13 | 5270 | 66 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.6667 | 7 | 0 | 7 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.4615 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | segdup | * | 99.2928 | 99.3390 | 99.2467 | 94.4424 | 1052 | 7 | 1054 | 8 | 2 | 25.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | segdup | het | 99.1669 | 99.4424 | 98.8930 | 95.2746 | 535 | 3 | 536 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | segdup | hetalt | 97.8723 | 95.8333 | 100.0000 | 95.6881 | 46 | 2 | 47 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | segdup | homalt | 99.5772 | 99.5772 | 99.5772 | 92.7775 | 471 | 2 | 471 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | SNP | * | segdup | * | 99.5028 | 99.8432 | 99.1647 | 90.1877 | 28023 | 44 | 28017 | 236 | 12 | 5.0848 | |
| bgallagher-sentieon | SNP | * | segdup | het | 99.2648 | 99.8268 | 98.7091 | 91.1291 | 17287 | 30 | 17281 | 226 | 2 | 0.8850 | |
| bgallagher-sentieon | SNP | * | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.6667 | 7 | 0 | 7 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | segdup | homalt | 99.8883 | 99.8697 | 99.9069 | 88.1168 | 10729 | 14 | 10729 | 10 | 10 | 100.0000 | |
| astatham-gatk | SNP | ti | segdup | * | 99.2327 | 98.6385 | 99.8342 | 89.7728 | 19271 | 266 | 19269 | 32 | 6 | 18.7500 | |
| astatham-gatk | SNP | ti | segdup | het | 98.8338 | 97.9219 | 99.7628 | 90.8470 | 11780 | 250 | 11778 | 28 | 2 | 7.1429 | |
| astatham-gatk | SNP | ti | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 98.5294 | 2 | 0 | 2 | 0 | 0 | ||
| astatham-gatk | SNP | ti | segdup | homalt | 99.8666 | 99.7868 | 99.9466 | 87.4281 | 7489 | 16 | 7489 | 4 | 4 | 100.0000 | |