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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29601-29650 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | SNP | ti | map_l100_m2_e1 | * | 99.5423 | 99.5494 | 99.5352 | 66.9275 | 49262 | 223 | 49255 | 230 | 30 | 13.0435 | |
| hfeng-pmm2 | SNP | ti | map_l100_m2_e1 | het | 99.3427 | 99.3508 | 99.3346 | 69.0698 | 30759 | 201 | 30752 | 206 | 16 | 7.7670 | |
| hfeng-pmm2 | SNP | ti | map_l100_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 75.2000 | 31 | 0 | 31 | 0 | 0 | ||
| hfeng-pmm2 | SNP | ti | map_l100_m2_e1 | homalt | 99.8756 | 99.8810 | 99.8702 | 62.5670 | 18472 | 22 | 18472 | 24 | 14 | 58.3333 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | * | 99.4903 | 99.6045 | 99.3764 | 68.9155 | 25183 | 100 | 25179 | 158 | 17 | 10.7595 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | het | 99.2765 | 99.4541 | 99.0995 | 70.8119 | 15851 | 87 | 15847 | 144 | 12 | 8.3333 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 78.5000 | 43 | 0 | 43 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | homalt | 99.8549 | 99.8602 | 99.8495 | 64.9261 | 9289 | 13 | 9289 | 14 | 5 | 35.7143 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | * | 98.5982 | 98.2428 | 98.9561 | 83.4763 | 3690 | 66 | 3697 | 39 | 9 | 23.0769 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | het | 98.5037 | 98.2501 | 98.7586 | 83.8596 | 2302 | 41 | 2307 | 29 | 5 | 17.2414 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | hetalt | 93.5484 | 87.8788 | 100.0000 | 87.1739 | 116 | 16 | 118 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | homalt | 99.2587 | 99.2974 | 99.2200 | 82.2364 | 1272 | 9 | 1272 | 10 | 4 | 40.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | * | 99.5245 | 99.5678 | 99.4812 | 67.6245 | 74414 | 323 | 74403 | 388 | 47 | 12.1134 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | het | 99.3202 | 99.3859 | 99.2545 | 69.6861 | 46610 | 288 | 46599 | 350 | 28 | 8.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 78.5000 | 43 | 0 | 43 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | homalt | 99.8687 | 99.8741 | 99.8633 | 63.3911 | 27761 | 35 | 27761 | 38 | 19 | 50.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | * | 89.5170 | 82.2096 | 98.2503 | 79.5686 | 61441 | 13296 | 61430 | 1094 | 86 | 7.8611 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | het | 92.4550 | 87.9526 | 97.4432 | 82.5075 | 41248 | 5650 | 41237 | 1082 | 78 | 7.2089 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | homalt | 84.0675 | 72.5428 | 99.9455 | 68.3772 | 20164 | 7632 | 20164 | 11 | 7 | 63.6364 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | * | 90.0482 | 82.8877 | 98.5628 | 78.3843 | 41017 | 8468 | 41010 | 598 | 70 | 11.7057 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | het | 92.9104 | 88.4076 | 97.8964 | 81.4552 | 27371 | 3589 | 27364 | 588 | 62 | 10.5442 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 81.4815 | 70.9677 | 95.6522 | 87.5676 | 22 | 9 | 22 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | homalt | 84.8134 | 73.6671 | 99.9340 | 67.2110 | 13624 | 4870 | 13624 | 9 | 7 | 77.7778 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0472 | 98.7814 | 97.3239 | 88.0481 | 1378 | 17 | 1382 | 38 | 5 | 13.1579 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | het | 97.2049 | 98.3951 | 96.0432 | 90.0501 | 797 | 13 | 801 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 96.5517 | 93.3333 | 100.0000 | 89.3401 | 42 | 3 | 42 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.4465 | 99.8148 | 99.0809 | 82.4799 | 539 | 1 | 539 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 96.5217 | 95.6897 | 97.3684 | 90.5863 | 111 | 5 | 111 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | het | 95.9350 | 96.7213 | 95.1613 | 91.9585 | 59 | 2 | 59 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | hetalt | 95.2381 | 90.9091 | 100.0000 | 82.3009 | 20 | 2 | 20 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | homalt | 98.4615 | 96.9697 | 100.0000 | 90.2141 | 32 | 1 | 32 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 95.6893 | 89 | 8 | 89 | 12 | 4 | 33.3333 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | het | 88.7476 | 96.0784 | 82.4561 | 96.6569 | 49 | 2 | 47 | 10 | 4 | 40.0000 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 90.9091 | 83.3333 | 100.0000 | 76.7241 | 25 | 5 | 27 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 90.9091 | 93.7500 | 88.2353 | 96.7433 | 15 | 1 | 15 | 2 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | * | 95.6364 | 95.6364 | 95.6364 | 89.5556 | 263 | 12 | 263 | 12 | 2 | 16.6667 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | het | 94.2446 | 97.0370 | 91.6084 | 92.2744 | 131 | 4 | 131 | 12 | 2 | 16.6667 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 95.7143 | 91.7808 | 100.0000 | 75.0929 | 67 | 6 | 67 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | homalt | 98.4848 | 97.0149 | 100.0000 | 87.3294 | 65 | 2 | 65 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | * | 90.5660 | 92.3077 | 88.8889 | 96.4520 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | het | 91.8919 | 94.4444 | 89.4737 | 95.6720 | 17 | 1 | 17 | 2 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | hetalt | 80.0000 | 66.6667 | 100.0000 | 95.0000 | 2 | 1 | 2 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | homalt | 90.9091 | 100.0000 | 83.3333 | 97.8723 | 5 | 0 | 5 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 97.0144 | 98.7107 | 95.3754 | 88.2617 | 1914 | 25 | 1918 | 93 | 8 | 8.6022 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 96.1455 | 99.1325 | 93.3333 | 89.3667 | 1257 | 11 | 1260 | 90 | 6 | 6.6667 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 90.3226 | 82.3529 | 100.0000 | 91.7939 | 42 | 9 | 43 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 84.2025 | 615 | 5 | 615 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e1 | * | 84.2482 | 73.6462 | 98.4160 | 83.3218 | 1428 | 511 | 1429 | 23 | 11 | 47.8261 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e1 | het | 86.3591 | 77.1293 | 98.0981 | 85.0382 | 978 | 290 | 980 | 19 | 7 | 36.8421 | |