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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84451-84500 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | * | hetalt | 98.8034 | 99.3127 | 98.2993 | 52.8846 | 578 | 4 | 578 | 10 | 10 | 100.0000 | |
| jlack-gatk | SNP | ti | * | homalt | 99.9698 | 99.9522 | 99.9874 | 15.9699 | 802654 | 384 | 802644 | 101 | 66 | 65.3465 | |
| jlack-gatk | INDEL | I1_5 | * | * | 99.0273 | 98.9407 | 99.1140 | 59.6345 | 149068 | 1596 | 149119 | 1333 | 677 | 50.7877 | |
| jlack-gatk | INDEL | I1_5 | * | het | 99.1970 | 99.4952 | 98.9006 | 61.6913 | 78642 | 399 | 78625 | 874 | 231 | 26.4302 | |
| jlack-gatk | INDEL | I1_5 | * | hetalt | 94.8892 | 90.3796 | 99.8725 | 62.8887 | 10118 | 1077 | 10180 | 13 | 12 | 92.3077 | |
| jlack-gatk | INDEL | I1_5 | * | homalt | 99.5330 | 99.8014 | 99.2660 | 55.8866 | 60308 | 120 | 60314 | 446 | 434 | 97.3094 | |
| jlack-gatk | INDEL | I6_15 | * | * | 96.1308 | 95.2745 | 97.0025 | 53.1865 | 23650 | 1173 | 23656 | 731 | 625 | 85.4993 | |
| jlack-gatk | INDEL | I6_15 | * | het | 97.9846 | 98.0664 | 97.9029 | 60.0128 | 9839 | 194 | 9804 | 210 | 112 | 53.3333 | |
| jlack-gatk | INDEL | I6_15 | * | hetalt | 94.0319 | 88.8083 | 99.9084 | 39.1561 | 7594 | 957 | 7635 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I6_15 | * | homalt | 95.8674 | 99.6474 | 92.3637 | 53.5505 | 6217 | 22 | 6217 | 514 | 507 | 98.6381 | |
| jlack-gatk | SNP | * | * | * | 99.7200 | 99.9393 | 99.5016 | 23.6335 | 3052765 | 1854 | 3052612 | 15290 | 548 | 3.5840 | |
| jlack-gatk | SNP | * | * | het | 99.5639 | 99.9321 | 99.1985 | 27.0831 | 1872315 | 1272 | 1872190 | 15127 | 441 | 2.9153 | |
| jlack-gatk | SNP | * | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | * | * | homalt | 99.9692 | 99.9511 | 99.9872 | 17.3366 | 1179584 | 577 | 1179556 | 151 | 96 | 63.5762 | |
| jli-custom | INDEL | D16_PLUS | * | homalt | 99.0858 | 99.2908 | 98.8817 | 67.1754 | 1680 | 12 | 1680 | 19 | 13 | 68.4211 | |
| jli-custom | INDEL | D1_5 | * | * | 99.6468 | 99.4746 | 99.8195 | 58.9401 | 145974 | 771 | 146018 | 264 | 201 | 76.1364 | |
| jli-custom | INDEL | D1_5 | * | het | 99.7840 | 99.7088 | 99.8593 | 56.7542 | 87319 | 255 | 87313 | 123 | 65 | 52.8455 | |
| jli-custom | INDEL | D1_5 | * | hetalt | 97.3277 | 95.2367 | 99.5126 | 64.3126 | 9757 | 488 | 9801 | 48 | 46 | 95.8333 | |
| jli-custom | INDEL | D1_5 | * | homalt | 99.8764 | 99.9428 | 99.8102 | 61.2620 | 48898 | 28 | 48904 | 93 | 90 | 96.7742 | |
| jli-custom | INDEL | D6_15 | * | * | 98.6381 | 98.1220 | 99.1595 | 51.2932 | 25602 | 490 | 25602 | 217 | 202 | 93.0876 | |
| jli-custom | INDEL | D6_15 | * | het | 99.0350 | 98.8958 | 99.1747 | 58.3418 | 11464 | 128 | 11416 | 95 | 84 | 88.4211 | |
| jli-custom | INDEL | D6_15 | * | hetalt | 97.5456 | 95.7181 | 99.4442 | 33.1475 | 7824 | 350 | 7872 | 44 | 42 | 95.4545 | |
| jli-custom | INDEL | D6_15 | * | homalt | 99.2923 | 99.8103 | 98.7797 | 52.7778 | 6314 | 12 | 6314 | 78 | 76 | 97.4359 | |
| jli-custom | INDEL | I6_15 | * | * | 97.9633 | 96.9786 | 98.9683 | 47.9648 | 24073 | 750 | 24077 | 251 | 222 | 88.4462 | |
| jli-custom | INDEL | I6_15 | * | het | 98.3728 | 97.3787 | 99.3875 | 54.1020 | 9770 | 263 | 9736 | 60 | 34 | 56.6667 | |
| jli-custom | INDEL | I6_15 | * | hetalt | 97.1523 | 94.5503 | 99.9016 | 36.5262 | 8085 | 466 | 8123 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | I6_15 | * | homalt | 98.3861 | 99.6634 | 97.1411 | 49.1984 | 6218 | 21 | 6218 | 183 | 180 | 98.3607 | |
| jli-custom | INDEL | I16_PLUS | * | * | 96.2725 | 93.9627 | 98.6987 | 64.2188 | 5992 | 385 | 5992 | 79 | 51 | 64.5570 | |
| jli-custom | INDEL | I16_PLUS | * | het | 95.1311 | 91.7586 | 98.7610 | 68.1314 | 2494 | 224 | 2471 | 31 | 8 | 25.8065 | |
| jli-custom | INDEL | I16_PLUS | * | hetalt | 96.3839 | 93.3270 | 99.6479 | 53.7674 | 1958 | 140 | 1981 | 7 | 7 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | * | homalt | 98.0267 | 98.6547 | 97.4067 | 67.1719 | 1540 | 21 | 1540 | 41 | 36 | 87.8049 | |
| jli-custom | INDEL | C6_15 | * | * | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 7 | 0 | 0 | 0 | 0 | ||
| jli-custom | INDEL | C6_15 | * | het | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 7 | 0 | 0 | 0 | 0 | ||
| jli-custom | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | D16_PLUS | * | * | 98.0920 | 97.4499 | 98.7427 | 65.2664 | 6611 | 173 | 6597 | 84 | 63 | 75.0000 | |
| jli-custom | INDEL | D16_PLUS | * | het | 97.9648 | 97.7208 | 98.2100 | 73.1193 | 3087 | 72 | 2853 | 52 | 37 | 71.1538 | |
| jli-custom | INDEL | D16_PLUS | * | hetalt | 97.3443 | 95.3958 | 99.3741 | 36.1316 | 1844 | 89 | 2064 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | C1_5 | * | * | 0.0000 | 70.0000 | 0.0000 | 0.0000 | 7 | 3 | 0 | 0 | 0 | ||
| jli-custom | INDEL | C1_5 | * | het | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 6 | 3 | 0 | 0 | 0 | ||
| jli-custom | INDEL | C1_5 | * | hetalt | 0.0000 | 100.0000 | 0.0000 | 0.0000 | 1 | 0 | 0 | 0 | 0 | ||
| jli-custom | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | I1_5 | * | * | 99.4941 | 99.2055 | 99.7844 | 57.0293 | 149467 | 1197 | 149502 | 323 | 257 | 79.5666 | |
| jli-custom | INDEL | I1_5 | * | het | 99.6300 | 99.4800 | 99.7804 | 58.4682 | 78630 | 411 | 78600 | 173 | 112 | 64.7399 | |
| jli-custom | INDEL | I1_5 | * | hetalt | 96.7648 | 93.7740 | 99.9527 | 62.3212 | 10498 | 697 | 10559 | 5 | 5 | 100.0000 | |
| jli-custom | INDEL | I1_5 | * | homalt | 99.8065 | 99.8527 | 99.7603 | 53.8126 | 60339 | 89 | 60343 | 145 | 140 | 96.5517 | |
| asubramanian-gatk | INDEL | C1_5 | * | * | 0.0000 | 80.0000 | 0.0000 | 77.6571 | 8 | 2 | 0 | 391 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C1_5 | * | het | 0.0000 | 77.7778 | 0.0000 | 78.8462 | 7 | 2 | 0 | 242 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C1_5 | * | hetalt | 0.0000 | 100.0000 | 0.0000 | 73.6842 | 1 | 0 | 0 | 5 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 75.4685 | 0 | 0 | 0 | 144 | 0 | 0.0000 | ||