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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63701-63750 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l125_m2_e1 | * | 95.1831 | 98.8894 | 91.7447 | 81.3088 | 16472 | 185 | 16470 | 1482 | 91 | 6.1404 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | het | 93.0368 | 99.0903 | 87.6803 | 84.5388 | 10457 | 96 | 10455 | 1469 | 82 | 5.5820 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | homalt | 99.1882 | 98.5677 | 99.8166 | 67.8547 | 5987 | 87 | 5987 | 11 | 7 | 63.6364 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | * | 96.2112 | 98.8920 | 93.6720 | 80.3444 | 46679 | 523 | 46673 | 3153 | 240 | 7.6118 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | het | 94.5222 | 99.0756 | 90.3690 | 83.8291 | 29366 | 274 | 29360 | 3129 | 222 | 7.0949 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.2279 | 98.5911 | 99.8729 | 66.9215 | 17285 | 247 | 17285 | 22 | 16 | 72.7273 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 96.2945 | 98.3908 | 94.2857 | 90.2392 | 856 | 14 | 858 | 52 | 5 | 9.6154 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 94.5144 | 98.0315 | 91.2409 | 91.8416 | 498 | 10 | 500 | 48 | 3 | 6.2500 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 97.2973 | 94.7368 | 100.0000 | 94.5619 | 18 | 1 | 18 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.9811 | 99.1254 | 98.8372 | 84.8791 | 340 | 3 | 340 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 88.0734 | 90.5660 | 85.7143 | 93.7079 | 48 | 5 | 48 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | het | 83.8710 | 86.6667 | 81.2500 | 94.5299 | 26 | 4 | 26 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | hetalt | 93.3333 | 87.5000 | 100.0000 | 91.2500 | 7 | 1 | 7 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | map_l125_m2_e1 | homalt | 93.7500 | 100.0000 | 88.2353 | 92.4444 | 15 | 0 | 15 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | het | 98.3616 | 98.0114 | 98.7143 | 86.9876 | 1380 | 28 | 1382 | 18 | 4 | 22.2222 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | hetalt | 93.8272 | 88.3721 | 100.0000 | 93.2981 | 38 | 5 | 38 | 0 | 0 | ||
| jli-custom | INDEL | * | map_l125_m2_e1 | homalt | 99.2258 | 99.3540 | 99.0979 | 85.7143 | 769 | 5 | 769 | 7 | 4 | 57.1429 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | * | 99.4064 | 99.0334 | 99.7822 | 70.1626 | 16496 | 161 | 16496 | 36 | 17 | 47.2222 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | het | 99.1904 | 98.6828 | 99.7032 | 70.4601 | 10414 | 139 | 10414 | 31 | 12 | 38.7097 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | hetalt | 96.5517 | 93.3333 | 100.0000 | 81.4570 | 28 | 2 | 28 | 0 | 0 | ||
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | homalt | 99.7940 | 99.6707 | 99.9175 | 69.5482 | 6054 | 20 | 6054 | 5 | 5 | 100.0000 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | * | 99.4698 | 99.1135 | 99.8287 | 70.7805 | 30298 | 271 | 30298 | 52 | 24 | 46.1538 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | het | 99.2602 | 98.7583 | 99.7671 | 71.8965 | 18850 | 237 | 18850 | 44 | 16 | 36.3636 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | hetalt | 95.6522 | 91.6667 | 100.0000 | 79.4393 | 22 | 2 | 22 | 0 | 0 | ||
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | homalt | 99.8253 | 99.7207 | 99.9300 | 68.7014 | 11426 | 32 | 11426 | 8 | 8 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7342 | 98.6207 | 98.8479 | 87.4221 | 858 | 12 | 858 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | het | 98.5192 | 98.2283 | 98.8119 | 87.8019 | 499 | 9 | 499 | 6 | 1 | 16.6667 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.2249 | 19 | 0 | 19 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.9811 | 99.1254 | 98.8372 | 85.8553 | 340 | 3 | 340 | 4 | 1 | 25.0000 | |
| eyeh-varpipe | INDEL | C16_PLUS | map_l125_m2_e1 | * | 0.0000 | 0.0000 | 95.6522 | 0 | 0 | 0 | 1 | 0 | 0.0000 | ||
| eyeh-varpipe | INDEL | C16_PLUS | map_l125_m2_e1 | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| eyeh-varpipe | INDEL | C16_PLUS | map_l125_m2_e1 | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| eyeh-varpipe | INDEL | C16_PLUS | map_l125_m2_e1 | homalt | 0.0000 | 0.0000 | 88.8889 | 0 | 0 | 0 | 1 | 0 | 0.0000 | ||
| egarrison-hhga | INDEL | I16_PLUS | map_l125_m2_e1 | * | 78.5714 | 73.3333 | 84.6154 | 90.2985 | 11 | 4 | 11 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | map_l125_m2_e1 | het | 77.7778 | 77.7778 | 77.7778 | 90.3226 | 7 | 2 | 7 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 78.5714 | 3 | 0 | 3 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | map_l125_m2_e1 | homalt | 50.0000 | 33.3333 | 100.0000 | 96.2963 | 1 | 2 | 1 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e1 | * | 95.0495 | 90.5660 | 100.0000 | 90.4950 | 48 | 5 | 48 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e1 | het | 90.9091 | 83.3333 | 100.0000 | 90.9747 | 25 | 5 | 25 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 89.4737 | 8 | 0 | 8 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m2_e1 | homalt | 100.0000 | 100.0000 | 100.0000 | 90.1316 | 15 | 0 | 15 | 0 | 0 | ||
| egarrison-hhga | SNP | * | map_l125_m2_e1 | * | 99.4493 | 99.0890 | 99.8122 | 70.5609 | 46772 | 430 | 46772 | 88 | 41 | 46.5909 | |
| egarrison-hhga | SNP | * | map_l125_m2_e1 | het | 99.2353 | 98.7314 | 99.7444 | 71.4034 | 29264 | 376 | 29264 | 75 | 28 | 37.3333 | |
| egarrison-hhga | SNP | * | map_l125_m2_e1 | hetalt | 96.5517 | 93.3333 | 100.0000 | 81.4570 | 28 | 2 | 28 | 0 | 0 | ||
| egarrison-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.8144 | 99.7034 | 99.9257 | 69.0000 | 17480 | 52 | 17480 | 13 | 13 | 100.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | * | 96.4393 | 96.0449 | 96.8369 | 94.4522 | 2137 | 88 | 2939 | 96 | 68 | 70.8333 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | het | 96.7368 | 96.5199 | 96.9546 | 85.7560 | 1359 | 49 | 1751 | 55 | 32 | 58.1818 | |