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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57501-57550 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | * | 78.0470 | 64.2498 | 99.3903 | 82.5096 | 31794 | 17691 | 31789 | 195 | 15 | 7.6923 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | het | 85.9506 | 75.8301 | 99.1886 | 83.8404 | 23477 | 7483 | 23472 | 192 | 12 | 6.2500 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | hetalt | 55.8140 | 38.7097 | 100.0000 | 93.1034 | 12 | 19 | 12 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | homalt | 61.9730 | 44.9065 | 99.9639 | 77.0833 | 8305 | 10189 | 8305 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | C16_PLUS | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l100_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_l100_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l100_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_l100_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_l100_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_l100_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 87.1287 | 90.7216 | 83.8095 | 94.9324 | 88 | 9 | 88 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | het | 86.0819 | 94.1176 | 79.3103 | 96.0137 | 48 | 3 | 46 | 12 | 4 | 33.3333 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 90.9091 | 83.3333 | 100.0000 | 78.7402 | 25 | 5 | 27 | 0 | 0 | ||
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 83.3333 | 93.7500 | 75.0000 | 95.9184 | 15 | 1 | 15 | 5 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | * | 98.3513 | 98.3759 | 98.3267 | 86.6891 | 3695 | 61 | 3702 | 63 | 16 | 25.3968 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | het | 98.1708 | 98.3781 | 97.9644 | 87.4166 | 2305 | 38 | 2310 | 48 | 10 | 20.8333 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | hetalt | 94.8678 | 90.9091 | 99.1870 | 87.3846 | 120 | 12 | 122 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | homalt | 99.0253 | 99.1413 | 98.9097 | 85.0193 | 1270 | 11 | 1270 | 14 | 6 | 42.8571 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | * | 77.1389 | 63.0879 | 99.2421 | 83.6761 | 47150 | 27587 | 47142 | 360 | 16 | 4.4444 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | het | 85.4225 | 75.1205 | 98.9994 | 84.8723 | 35230 | 11668 | 35222 | 356 | 13 | 3.6517 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 94.6237 | 15 | 28 | 15 | 0 | 0 | ||
| ckim-vqsr | SNP | * | map_l100_m2_e1 | homalt | 59.9673 | 42.8299 | 99.9664 | 78.5551 | 11905 | 15891 | 11905 | 4 | 3 | 75.0000 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | * | 75.3037 | 60.7839 | 98.9375 | 85.6609 | 15368 | 9915 | 15365 | 165 | 1 | 0.6061 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | het | 84.3869 | 73.7420 | 98.6235 | 86.5752 | 11753 | 4185 | 11750 | 164 | 1 | 0.6098 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | hetalt | 51.7241 | 34.8837 | 100.0000 | 94.6237 | 15 | 28 | 15 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | homalt | 55.8010 | 38.7014 | 99.9722 | 81.3226 | 3600 | 5702 | 3600 | 1 | 0 | 0.0000 | |
| 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 | C1_5 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm3 | INDEL | C1_5 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm3 | INDEL | C1_5 | map_l100_m2_e1 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm3 | INDEL | C1_5 | map_l100_m2_e1 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| 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 | |
| hfeng-pmm3 | INDEL | C16_PLUS | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm3 | INDEL | C16_PLUS | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||