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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84501-84550 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | * | * | 99.6161 | 99.2515 | 99.9833 | 17.5605 | 2069900 | 15611 | 2069836 | 345 | 101 | 29.2754 | |
| astatham-gatk | SNP | ti | * | het | 99.3889 | 98.8086 | 99.9762 | 18.5890 | 1266618 | 15273 | 1266563 | 302 | 60 | 19.8675 | |
| astatham-gatk | SNP | ti | * | hetalt | 99.8279 | 99.6564 | 100.0000 | 39.9586 | 580 | 2 | 580 | 0 | 0 | ||
| astatham-gatk | SNP | ti | * | homalt | 99.9764 | 99.9582 | 99.9946 | 15.8604 | 802702 | 336 | 802693 | 43 | 41 | 95.3488 | |
| asubramanian-gatk | INDEL | C6_15 | * | * | 0.0000 | 100.0000 | 0.0000 | 80.1262 | 7 | 0 | 0 | 189 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C6_15 | * | het | 0.0000 | 100.0000 | 0.0000 | 80.4124 | 7 | 0 | 0 | 133 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 82.3529 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 79.2157 | 0 | 0 | 0 | 53 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | * | * | 96.9778 | 96.5949 | 97.3637 | 71.3383 | 6553 | 231 | 6537 | 177 | 130 | 73.4463 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | het | 97.0125 | 97.6891 | 96.3452 | 79.1579 | 3086 | 73 | 2847 | 108 | 74 | 68.5185 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | hetalt | 95.6218 | 93.1712 | 98.2048 | 39.4536 | 1801 | 132 | 2024 | 37 | 31 | 83.7838 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | homalt | 98.2891 | 98.4634 | 98.1154 | 70.9396 | 1666 | 26 | 1666 | 32 | 25 | 78.1250 | |
| asubramanian-gatk | INDEL | * | * | * | 98.8418 | 98.5404 | 99.1451 | 71.3671 | 339513 | 5029 | 339442 | 2927 | 1779 | 60.7790 | |
| asubramanian-gatk | INDEL | * | * | het | 98.9698 | 98.6849 | 99.2562 | 61.7813 | 191580 | 2553 | 191238 | 1433 | 589 | 41.1026 | |
| asubramanian-gatk | INDEL | * | * | hetalt | 95.6373 | 92.5665 | 98.9188 | 59.3274 | 23361 | 1876 | 23605 | 258 | 236 | 91.4729 | |
| asubramanian-gatk | INDEL | * | * | homalt | 99.2686 | 99.5207 | 99.0178 | 58.9491 | 124572 | 600 | 124599 | 1236 | 954 | 77.1845 | |
| asubramanian-gatk | INDEL | C16_PLUS | * | * | 0.0000 | 0.0000 | 87.7138 | 0 | 0 | 0 | 79 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | * | het | 0.0000 | 0.0000 | 89.8048 | 0 | 0 | 0 | 47 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | * | hetalt | 0.0000 | 0.0000 | 54.5455 | 0 | 0 | 0 | 5 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 84.2105 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D1_5 | * | * | 99.2637 | 98.9281 | 99.6016 | 61.0980 | 145172 | 1573 | 145253 | 581 | 383 | 65.9208 | |
| asubramanian-gatk | INDEL | D1_5 | * | het | 99.3754 | 99.1025 | 99.6499 | 59.9427 | 86788 | 786 | 86804 | 305 | 126 | 41.3115 | |
| asubramanian-gatk | INDEL | D1_5 | * | hetalt | 96.4051 | 93.9092 | 99.0373 | 64.2371 | 9621 | 624 | 9670 | 94 | 88 | 93.6170 | |
| asubramanian-gatk | INDEL | D1_5 | * | homalt | 99.6476 | 99.6668 | 99.6283 | 62.3701 | 48763 | 163 | 48779 | 182 | 169 | 92.8571 | |
| astatham-gatk | SNP | tv | * | * | 99.5449 | 99.1184 | 99.9751 | 22.0764 | 961141 | 8549 | 961059 | 239 | 61 | 25.5230 | |
| astatham-gatk | SNP | tv | * | het | 99.2722 | 98.5893 | 99.9647 | 23.3815 | 583349 | 8347 | 583282 | 206 | 35 | 16.9903 | |
| astatham-gatk | SNP | tv | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| astatham-gatk | SNP | tv | * | homalt | 99.9694 | 99.9475 | 99.9912 | 19.9071 | 376925 | 198 | 376910 | 33 | 26 | 78.7879 | |
| anovak-vg | INDEL | I1_5 | * | * | 54.8287 | 54.8578 | 54.7996 | 53.4671 | 82651 | 68013 | 84844 | 69982 | 59671 | 85.2662 | |
| anovak-vg | INDEL | I1_5 | * | het | 38.2803 | 26.6836 | 67.7044 | 67.2836 | 21091 | 57950 | 25553 | 12189 | 4021 | 32.9888 | |
| anovak-vg | INDEL | I1_5 | * | hetalt | 0.0000 | 31.2282 | 0.0000 | 0.0000 | 3496 | 7699 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | * | homalt | 66.3251 | 96.0879 | 50.6397 | 46.1343 | 58064 | 2364 | 59291 | 57793 | 55650 | 96.2919 | |
| astatham-gatk | INDEL | * | * | * | 99.3424 | 99.2404 | 99.4446 | 59.9126 | 341925 | 2617 | 341788 | 1909 | 1550 | 81.1943 | |
| astatham-gatk | INDEL | * | * | het | 99.5127 | 99.4973 | 99.5281 | 60.7701 | 193157 | 976 | 192779 | 914 | 573 | 62.6915 | |
| astatham-gatk | INDEL | * | * | hetalt | 96.8001 | 94.0563 | 99.7088 | 58.1664 | 23737 | 1500 | 23968 | 70 | 69 | 98.5714 | |
| astatham-gatk | INDEL | * | * | homalt | 99.5755 | 99.8874 | 99.2657 | 58.8575 | 125031 | 141 | 125041 | 925 | 908 | 98.1622 | |
| anovak-vg | INDEL | I6_15 | * | * | 44.4248 | 38.7222 | 52.0973 | 38.6048 | 9612 | 15211 | 9514 | 8748 | 6474 | 74.0055 | |
| anovak-vg | INDEL | I6_15 | * | het | 35.7228 | 26.3530 | 55.4313 | 44.2246 | 2644 | 7389 | 4312 | 3467 | 1789 | 51.6008 | |
| anovak-vg | INDEL | I6_15 | * | hetalt | 0.0000 | 22.5588 | 0.0000 | 0.0000 | 1929 | 6622 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | * | homalt | 61.4755 | 80.7661 | 49.6232 | 33.6435 | 5039 | 1200 | 5202 | 5281 | 4685 | 88.7143 | |
| anovak-vg | SNP | * | * | * | 98.4545 | 98.3357 | 98.5736 | 21.3437 | 3003796 | 50838 | 2987348 | 43227 | 18700 | 43.2600 | |
| anovak-vg | SNP | * | * | het | 98.0636 | 98.0936 | 98.0337 | 24.0083 | 1837883 | 35718 | 1828909 | 36684 | 13178 | 35.9230 | |
| anovak-vg | SNP | * | * | hetalt | 0.0000 | 14.4661 | 0.0000 | 0.0000 | 126 | 745 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | * | homalt | 99.1091 | 98.7819 | 99.4384 | 16.6644 | 1165787 | 14375 | 1158439 | 6543 | 5522 | 84.3955 | |
| astatham-gatk | INDEL | C16_PLUS | * | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | * | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | * | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | * | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | tv | * | * | 98.3366 | 98.3717 | 98.3016 | 24.5602 | 953908 | 15790 | 951566 | 16441 | 6526 | 39.6934 | |
| anovak-vg | SNP | tv | * | het | 97.9352 | 98.2070 | 97.6649 | 27.4537 | 581095 | 10609 | 580225 | 13873 | 4566 | 32.9129 | |