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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20401-20450 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | map_l150_m0_e0 | * | 77.8146 | 81.9066 | 74.1121 | 85.6738 | 9855 | 2177 | 9745 | 3404 | 959 | 28.1727 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | het | 75.3571 | 86.4106 | 66.8109 | 87.0439 | 6861 | 1079 | 6796 | 3376 | 934 | 27.6659 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | hetalt | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| astatham-gatk | INDEL | * | map_l150_m0_e0 | * | 96.2251 | 96.4981 | 95.9538 | 92.9541 | 496 | 18 | 498 | 21 | 4 | 19.0476 | |
| astatham-gatk | INDEL | * | map_l150_m0_e0 | het | 95.0292 | 95.0147 | 95.0437 | 93.4915 | 324 | 17 | 326 | 17 | 1 | 5.8824 | |
| astatham-gatk | INDEL | * | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 95.0820 | 9 | 0 | 9 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l150_m0_e0 | homalt | 98.4894 | 99.3902 | 97.6048 | 91.2703 | 163 | 1 | 163 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m0_e0 | * | 72.0000 | 75.0000 | 69.2308 | 92.6966 | 6 | 2 | 9 | 4 | 1 | 25.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m0_e0 | het | 63.8298 | 75.0000 | 55.5556 | 92.7419 | 3 | 1 | 5 | 4 | 1 | 25.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | I6_15 | map_l150_m0_e0 | homalt | 85.7143 | 75.0000 | 100.0000 | 92.5926 | 3 | 1 | 4 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l150_m0_e0 | * | 77.9452 | 82.2472 | 74.0709 | 86.1595 | 3433 | 741 | 3428 | 1200 | 357 | 29.7500 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | het | 76.3189 | 87.6187 | 67.6007 | 87.1885 | 2491 | 352 | 2485 | 1191 | 350 | 29.3871 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | hetalt | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l150_m0_e0 | homalt | 82.5658 | 70.7831 | 99.0546 | 79.9368 | 940 | 388 | 943 | 9 | 7 | 77.7778 | |
| anovak-vg | INDEL | I1_5 | map_l150_m0_e0 | * | 58.6797 | 59.6591 | 57.7320 | 93.8118 | 105 | 71 | 112 | 82 | 51 | 62.1951 | |
| anovak-vg | INDEL | I1_5 | map_l150_m0_e0 | het | 49.5474 | 41.5094 | 61.4458 | 95.8870 | 44 | 62 | 51 | 32 | 4 | 12.5000 | |
| anovak-vg | INDEL | I1_5 | map_l150_m0_e0 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 1 | 2 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l150_m0_e0 | homalt | 68.1120 | 89.5522 | 54.9550 | 90.0627 | 60 | 7 | 61 | 50 | 47 | 94.0000 | |
| astatham-gatk | INDEL | C16_PLUS | map_l150_m0_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l150_m0_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l150_m0_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l150_m0_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | SNP | ti | map_l150_m0_e0 | * | 77.7546 | 81.7199 | 74.1564 | 85.3644 | 6424 | 1437 | 6373 | 2221 | 611 | 27.5101 | |
| anovak-vg | SNP | ti | map_l150_m0_e0 | het | 74.8246 | 85.7367 | 66.3765 | 86.9328 | 4370 | 727 | 4347 | 2202 | 593 | 26.9301 | |
| anovak-vg | SNP | ti | map_l150_m0_e0 | hetalt | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l150_m0_e0 | homalt | 84.9295 | 74.3209 | 99.0709 | 76.2265 | 2052 | 709 | 2026 | 19 | 18 | 94.7368 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | * | 91.8129 | 89.2045 | 94.5783 | 94.1487 | 157 | 19 | 157 | 9 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | het | 87.2549 | 83.9623 | 90.8163 | 95.3356 | 89 | 17 | 89 | 9 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 96.5909 | 3 | 0 | 3 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | homalt | 98.4848 | 97.0149 | 100.0000 | 89.9691 | 65 | 2 | 65 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | * | 32.0231 | 19.0688 | 99.8668 | 96.6434 | 1499 | 6362 | 1499 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | het | 34.9037 | 21.1497 | 99.8148 | 97.0413 | 1078 | 4019 | 1078 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | hetalt | 50.0000 | 33.3333 | 100.0000 | 96.8750 | 1 | 2 | 1 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l150_m0_e0 | homalt | 26.4068 | 15.2119 | 100.0000 | 94.8680 | 420 | 2341 | 420 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l150_m0_e0 | homalt | 92.3077 | 85.7143 | 100.0000 | 95.6835 | 6 | 1 | 6 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m0_e0 | * | 75.0000 | 75.0000 | 75.0000 | 98.1221 | 3 | 1 | 3 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m0_e0 | het | 50.0000 | 50.0000 | 50.0000 | 98.2759 | 1 | 1 | 1 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 85.7143 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m0_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 98.8889 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | * | 31.2706 | 18.5422 | 99.7318 | 96.8590 | 2231 | 9801 | 2231 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | het | 34.0434 | 20.5290 | 99.6333 | 97.2059 | 1630 | 6310 | 1630 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | hetalt | 50.0000 | 33.3333 | 100.0000 | 98.0000 | 1 | 2 | 1 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | homalt | 25.5918 | 14.6735 | 100.0000 | 95.2449 | 600 | 3489 | 600 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | * | 90.0178 | 90.3114 | 89.7260 | 93.4821 | 261 | 28 | 262 | 30 | 2 | 6.6667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 88.8889 | 91.0891 | 86.7925 | 93.8746 | 184 | 18 | 184 | 28 | 1 | 3.5714 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 98.1818 | 2 | 0 | 2 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | homalt | 92.6076 | 88.2353 | 97.4359 | 91.4191 | 75 | 10 | 76 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l150_m0_e0 | * | 96.7742 | 93.7500 | 100.0000 | 95.5840 | 30 | 2 | 31 | 0 | 0 | ||