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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23651-23700 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | * | 50.7042 | 33.9623 | 100.0000 | 95.3368 | 18 | 35 | 18 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | het | 46.1538 | 30.0000 | 100.0000 | 97.0803 | 9 | 21 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | hetalt | 85.7143 | 75.0000 | 100.0000 | 87.5000 | 6 | 2 | 7 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l125_m2_e0 | homalt | 33.3333 | 20.0000 | 100.0000 | 94.6429 | 3 | 12 | 3 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l125_m2_e0 | * | 73.7324 | 58.4787 | 99.7518 | 72.8403 | 27323 | 19400 | 27325 | 68 | 16 | 23.5294 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | het | 77.2355 | 63.0466 | 99.6657 | 75.2911 | 18484 | 10834 | 18486 | 62 | 10 | 16.1290 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_l125_m2_e0 | homalt | 67.3485 | 50.7856 | 99.9434 | 65.6165 | 8824 | 8551 | 8824 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | * | 82.6884 | 71.0618 | 98.8636 | 87.6156 | 609 | 248 | 609 | 7 | 2 | 28.5714 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | het | 86.0068 | 76.0563 | 98.9529 | 89.5285 | 378 | 119 | 378 | 4 | 1 | 25.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 88.8889 | 84.2105 | 94.1176 | 91.7476 | 16 | 3 | 16 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m2_e0 | homalt | 77.0609 | 63.0499 | 99.0783 | 80.6250 | 215 | 126 | 215 | 2 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | map_l125_m2_e0 | * | 75.2532 | 60.4006 | 99.7925 | 72.3144 | 18276 | 11982 | 18276 | 38 | 7 | 18.4211 | |
| ckim-isaac | SNP | ti | map_l125_m2_e0 | het | 78.5719 | 64.8231 | 99.7229 | 74.9990 | 12236 | 6640 | 12236 | 34 | 3 | 8.8235 | |
| ckim-isaac | SNP | ti | map_l125_m2_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 78.1818 | 12 | 12 | 12 | 0 | 0 | ||
| ckim-isaac | SNP | ti | map_l125_m2_e0 | homalt | 69.3312 | 53.0727 | 99.9503 | 64.5277 | 6028 | 5330 | 6028 | 3 | 3 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | * | 70.8343 | 54.9397 | 99.6700 | 73.8494 | 9059 | 7430 | 9061 | 30 | 9 | 30.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | het | 74.7458 | 59.8353 | 99.5540 | 75.8427 | 6248 | 4194 | 6250 | 28 | 7 | 25.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 81.0127 | 15 | 15 | 15 | 0 | 0 | ||
| ckim-isaac | SNP | tv | map_l125_m2_e0 | homalt | 63.4373 | 46.4683 | 99.9285 | 67.7501 | 2796 | 3221 | 2796 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | * | 96.8419 | 96.3115 | 97.3781 | 91.7140 | 2115 | 81 | 2117 | 57 | 8 | 14.0351 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | het | 95.6234 | 94.9676 | 96.2882 | 93.0044 | 1321 | 70 | 1323 | 51 | 5 | 9.8039 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | hetalt | 93.6709 | 88.0952 | 100.0000 | 93.5875 | 37 | 5 | 37 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | homalt | 99.2136 | 99.2136 | 99.2136 | 87.3235 | 757 | 6 | 757 | 6 | 3 | 50.0000 | |
| ckim-vqsr | INDEL | C16_PLUS | map_l125_m2_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C16_PLUS | map_l125_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C16_PLUS | map_l125_m2_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C16_PLUS | map_l125_m2_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | SNP | * | map_l125_m2_e0 | * | 70.4819 | 54.7482 | 98.9056 | 88.7400 | 25580 | 21143 | 25577 | 283 | 6 | 2.1201 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | het | 81.2064 | 69.0122 | 98.6348 | 89.1411 | 20233 | 9085 | 20230 | 280 | 4 | 1.4286 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | hetalt | 37.8378 | 23.3333 | 100.0000 | 97.1074 | 7 | 23 | 7 | 0 | 0 | ||
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | * | 69.7523 | 53.9693 | 98.5819 | 89.6043 | 8899 | 7590 | 8898 | 128 | 1 | 0.7813 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | het | 80.8052 | 68.6171 | 98.2581 | 89.8954 | 7165 | 3277 | 7164 | 127 | 1 | 0.7874 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | hetalt | 37.8378 | 23.3333 | 100.0000 | 97.1074 | 7 | 23 | 7 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | homalt | 44.5965 | 28.7020 | 99.9421 | 88.0225 | 1727 | 4290 | 1727 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | * | 98.3167 | 98.3151 | 98.3182 | 89.0905 | 2159 | 37 | 2163 | 37 | 8 | 21.6216 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | het | 98.0266 | 98.0590 | 97.9943 | 89.7744 | 1364 | 27 | 1368 | 28 | 4 | 14.2857 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | hetalt | 97.5610 | 95.2381 | 100.0000 | 93.2546 | 40 | 2 | 40 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | homalt | 98.8867 | 98.9515 | 98.8220 | 87.0968 | 755 | 8 | 755 | 9 | 4 | 44.4444 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | * | 70.8577 | 55.1491 | 99.0796 | 88.2228 | 16687 | 13571 | 16685 | 155 | 5 | 3.2258 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | het | 81.4281 | 69.2308 | 98.8426 | 88.6749 | 13068 | 5808 | 13066 | 153 | 3 | 1.9608 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | hetalt | 40.0000 | 25.0000 | 100.0000 | 95.9732 | 6 | 18 | 6 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | homalt | 48.2602 | 31.8102 | 99.9447 | 86.1579 | 3613 | 7745 | 3613 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | C16_PLUS | map_l125_m2_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l125_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l125_m2_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l125_m2_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l125_m2_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l125_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||