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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63901-63950 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | C6_15 | map_l125_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C6_15 | map_l125_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C6_15 | map_l125_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | C6_15 | map_l125_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e1 | * | 95.6522 | 94.5312 | 96.8000 | 93.1769 | 121 | 7 | 121 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e1 | het | 94.3662 | 94.3662 | 94.3662 | 94.6896 | 67 | 4 | 67 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 94.7368 | 90.0000 | 100.0000 | 88.0000 | 18 | 2 | 18 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e1 | homalt | 98.6301 | 97.2973 | 100.0000 | 89.5652 | 36 | 1 | 36 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 93.2039 | 90.5660 | 96.0000 | 93.1319 | 48 | 5 | 48 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e1 | het | 91.5254 | 90.0000 | 93.1034 | 93.1442 | 27 | 3 | 27 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e1 | hetalt | 93.3333 | 87.5000 | 100.0000 | 89.3939 | 7 | 1 | 7 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | map_l125_m2_e1 | homalt | 96.5517 | 93.3333 | 100.0000 | 94.1423 | 14 | 1 | 14 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 98.8504 | 98.7356 | 98.9655 | 87.9150 | 859 | 11 | 861 | 9 | 2 | 22.2222 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 98.4213 | 98.0315 | 98.8142 | 89.0239 | 498 | 10 | 500 | 6 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.5593 | 19 | 0 | 19 | 0 | 0 | ||
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 99.4186 | 99.7085 | 99.1304 | 84.9608 | 342 | 1 | 342 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6196 | 98.7035 | 98.5357 | 88.1988 | 1142 | 15 | 1144 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 98.3844 | 98.7013 | 98.0695 | 88.5449 | 760 | 10 | 762 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | hetalt | 96.5517 | 93.3333 | 100.0000 | 95.8333 | 14 | 1 | 14 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | homalt | 99.1914 | 98.9247 | 99.4595 | 86.3921 | 368 | 4 | 368 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | map_l125_m2_e1 | * | 87.5000 | 93.3333 | 82.3529 | 96.7495 | 14 | 1 | 14 | 3 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | map_l125_m2_e1 | het | 94.7368 | 100.0000 | 90.0000 | 96.4413 | 9 | 0 | 9 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | map_l125_m2_e1 | hetalt | 80.0000 | 66.6667 | 100.0000 | 90.4762 | 2 | 1 | 2 | 0 | 0 | ||
| dgrover-gatk | INDEL | I16_PLUS | map_l125_m2_e1 | homalt | 75.0000 | 100.0000 | 60.0000 | 97.7376 | 3 | 0 | 3 | 2 | 0 | 0.0000 | |
| dgrover-gatk | SNP | * | map_l125_m2_e1 | * | 99.3336 | 99.3263 | 99.3409 | 74.2508 | 46884 | 318 | 46878 | 311 | 69 | 22.1865 | |
| dgrover-gatk | SNP | * | map_l125_m2_e1 | het | 99.1713 | 99.3286 | 99.0144 | 77.3174 | 29441 | 199 | 29435 | 293 | 56 | 19.1126 | |
| dgrover-gatk | SNP | * | map_l125_m2_e1 | hetalt | 98.3051 | 96.6667 | 100.0000 | 77.1654 | 29 | 1 | 29 | 0 | 0 | ||
| dgrover-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.6110 | 99.3269 | 99.8967 | 66.5258 | 17414 | 118 | 17414 | 18 | 13 | 72.2222 | |
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e1 | * | 96.4143 | 94.5312 | 98.3740 | 91.7616 | 121 | 7 | 121 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e1 | het | 96.4539 | 95.7746 | 97.1429 | 93.0830 | 68 | 3 | 68 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 94.7368 | 90.0000 | 100.0000 | 87.4126 | 18 | 2 | 18 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e1 | homalt | 97.2222 | 94.5946 | 100.0000 | 89.6450 | 35 | 2 | 35 | 0 | 0 | ||
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | * | 99.3781 | 99.3327 | 99.4236 | 73.9461 | 30365 | 204 | 30361 | 176 | 42 | 23.8636 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | het | 99.2226 | 99.3137 | 99.1317 | 77.0880 | 18956 | 131 | 18952 | 166 | 34 | 20.4819 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.7317 | 24 | 0 | 24 | 0 | 0 | ||
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.6368 | 99.3629 | 99.9122 | 66.1709 | 11385 | 73 | 11385 | 10 | 8 | 80.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | * | 99.2530 | 99.3156 | 99.1905 | 74.7864 | 16543 | 114 | 16541 | 135 | 27 | 20.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | het | 99.0786 | 99.3556 | 98.8030 | 77.7194 | 10485 | 68 | 10483 | 127 | 22 | 17.3228 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | hetalt | 98.3051 | 96.6667 | 100.0000 | 77.1654 | 29 | 1 | 29 | 0 | 0 | ||
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | homalt | 99.5624 | 99.2591 | 99.8675 | 67.1759 | 6029 | 45 | 6029 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | * | 80.9704 | 87.5908 | 75.2805 | 76.3445 | 14590 | 2067 | 14560 | 4781 | 1080 | 22.5894 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | het | 77.4408 | 91.5759 | 67.0858 | 78.0971 | 9664 | 889 | 9657 | 4738 | 1048 | 22.1190 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | hetalt | 0.0000 | 30.0000 | 0.0000 | 0.0000 | 9 | 21 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l125_m2_e1 | homalt | 89.1235 | 80.9516 | 99.1306 | 69.1627 | 4917 | 1157 | 4903 | 43 | 32 | 74.4186 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | * | 59.0339 | 60.9195 | 57.2614 | 87.6774 | 530 | 340 | 552 | 412 | 282 | 68.4466 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | het | 49.1777 | 39.7638 | 64.4315 | 91.9559 | 202 | 306 | 221 | 122 | 15 | 12.2951 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 0.0000 | 36.8421 | 0.0000 | 0.0000 | 7 | 12 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | homalt | 67.9194 | 93.5860 | 53.3011 | 82.5513 | 321 | 22 | 331 | 290 | 267 | 92.0690 | |
| astatham-gatk | INDEL | C16_PLUS | map_l125_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | C16_PLUS | map_l125_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||