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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84301-84350 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D16_PLUS | * | * | 96.2606 | 96.5065 | 96.0159 | 70.3319 | 6547 | 237 | 6531 | 271 | 163 | 60.1476 | |
| jlack-gatk | INDEL | D16_PLUS | * | het | 95.4976 | 98.6705 | 92.5225 | 78.1303 | 3117 | 42 | 2883 | 233 | 133 | 57.0815 | |
| jlack-gatk | INDEL | D16_PLUS | * | hetalt | 94.8361 | 90.8432 | 99.1960 | 37.9289 | 1756 | 177 | 1974 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | * | homalt | 98.8194 | 98.9362 | 98.7028 | 69.0115 | 1674 | 18 | 1674 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | C1_5 | * | * | 0.0000 | 90.0000 | 0.0000 | 0.0000 | 9 | 1 | 0 | 0 | 0 | ||
| jlack-gatk | INDEL | C1_5 | * | het | 0.0000 | 88.8889 | 0.0000 | 0.0000 | 8 | 1 | 0 | 0 | 0 | ||
| jlack-gatk | INDEL | C1_5 | * | hetalt | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 1 | 0 | 0 | 0 | 0 | ||
| jlack-gatk | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | * | * | * | 99.1098 | 99.0216 | 99.1981 | 60.9184 | 341171 | 3371 | 341038 | 2757 | 1621 | 58.7958 | |
| jmaeng-gatk | INDEL | * | * | het | 99.3015 | 99.4880 | 99.1156 | 62.5254 | 193139 | 994 | 192770 | 1720 | 614 | 35.6977 | |
| jmaeng-gatk | INDEL | * | * | hetalt | 95.2835 | 91.2311 | 99.7126 | 56.1602 | 23024 | 2213 | 23247 | 67 | 66 | 98.5075 | |
| jmaeng-gatk | INDEL | * | * | homalt | 99.5485 | 99.8690 | 99.2301 | 59.0290 | 125008 | 164 | 125021 | 970 | 941 | 97.0103 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | * | 97.5405 | 97.4499 | 97.6314 | 70.8962 | 6611 | 173 | 6595 | 160 | 119 | 74.3750 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | het | 97.5431 | 99.0503 | 96.0810 | 78.7734 | 3129 | 30 | 2893 | 118 | 85 | 72.0339 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | hetalt | 96.0050 | 92.9126 | 99.3103 | 38.0720 | 1796 | 137 | 2016 | 14 | 14 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | homalt | 99.0018 | 99.6454 | 98.3664 | 70.1757 | 1686 | 6 | 1686 | 28 | 20 | 71.4286 | |
| jmaeng-gatk | INDEL | C6_15 | * | * | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 7 | 0 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | C6_15 | * | het | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 7 | 0 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | C16_PLUS | * | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | C16_PLUS | * | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | C16_PLUS | * | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jmaeng-gatk | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | SNP | * | * | * | 99.9382 | 99.9603 | 99.9160 | 18.2994 | 3053407 | 1212 | 3053302 | 2566 | 212 | 8.2619 | |
| jli-custom | SNP | * | * | het | 99.9088 | 99.9498 | 99.8677 | 18.9256 | 1872647 | 940 | 1872558 | 2480 | 145 | 5.8468 | |
| jli-custom | SNP | * | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 43.3225 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | * | homalt | 99.9850 | 99.9771 | 99.9928 | 17.2570 | 1179891 | 270 | 1179875 | 85 | 66 | 77.6471 | |
| jmaeng-gatk | INDEL | C1_5 | * | * | 0.0000 | 90.0000 | 0.0000 | 0.0000 | 9 | 1 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | C1_5 | * | het | 0.0000 | 88.8889 | 0.0000 | 0.0000 | 8 | 1 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | C1_5 | * | hetalt | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 1 | 0 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | SNP | ti | * | * | 99.9536 | 99.9637 | 99.9435 | 16.8976 | 2084755 | 756 | 2084716 | 1179 | 130 | 11.0263 | |
| jli-custom | SNP | ti | * | het | 99.9331 | 99.9539 | 99.9123 | 17.4772 | 1281300 | 591 | 1281266 | 1125 | 87 | 7.7333 | |
| jli-custom | SNP | ti | * | hetalt | 99.7420 | 99.6564 | 99.8279 | 42.8150 | 580 | 2 | 580 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | ti | * | homalt | 99.9866 | 99.9797 | 99.9934 | 15.9268 | 802875 | 163 | 802870 | 53 | 42 | 79.2453 | |
| jli-custom | SNP | tv | * | * | 99.9049 | 99.9528 | 99.8570 | 21.1774 | 969232 | 458 | 969166 | 1388 | 83 | 5.9798 | |
| jli-custom | SNP | tv | * | het | 99.8561 | 99.9410 | 99.7714 | 21.8920 | 591347 | 349 | 591292 | 1355 | 58 | 4.2804 | |
| jli-custom | SNP | tv | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 43.3225 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | tv | * | homalt | 99.9816 | 99.9716 | 99.9915 | 19.9541 | 377016 | 107 | 377005 | 32 | 24 | 75.0000 | |
| hfeng-pmm3 | SNP | ti | * | * | 99.9596 | 99.9417 | 99.9775 | 17.0194 | 2084295 | 1216 | 2084236 | 469 | 46 | 9.8081 | |
| hfeng-pmm3 | SNP | ti | * | het | 99.9388 | 99.9112 | 99.9664 | 17.2454 | 1280753 | 1138 | 1280703 | 430 | 18 | 4.1861 | |
| hfeng-pmm3 | SNP | ti | * | hetalt | 99.7420 | 99.6564 | 99.8279 | 45.8022 | 580 | 2 | 580 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | * | homalt | 99.9929 | 99.9905 | 99.9953 | 16.6242 | 802962 | 76 | 802953 | 38 | 27 | 71.0526 | |
| hfeng-pmm3 | INDEL | D1_5 | * | * | 99.5137 | 99.1441 | 99.8861 | 56.7122 | 145489 | 1256 | 145542 | 166 | 109 | 65.6627 | |
| hfeng-pmm3 | INDEL | D1_5 | * | het | 99.5975 | 99.3183 | 99.8783 | 55.2507 | 86977 | 597 | 86982 | 106 | 53 | 50.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | * | hetalt | 96.9633 | 94.1240 | 99.9794 | 61.2573 | 9643 | 602 | 9686 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | * | homalt | 99.8825 | 99.8835 | 99.8815 | 58.1721 | 48869 | 57 | 48874 | 58 | 56 | 96.5517 | |
| hfeng-pmm3 | INDEL | I6_15 | * | * | 97.8954 | 96.7812 | 99.0356 | 49.5509 | 24024 | 799 | 24029 | 234 | 222 | 94.8718 | |
| hfeng-pmm3 | INDEL | I6_15 | * | het | 98.8597 | 98.1362 | 99.5939 | 56.2294 | 9846 | 187 | 9811 | 40 | 29 | 72.5000 | |