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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79301-79350 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | ti | map_siren | hetalt | 70.4545 | 54.3860 | 100.0000 | 72.0721 | 31 | 26 | 31 | 0 | 0 | ||
| ckim-isaac | SNP | ti | map_siren | homalt | 82.7288 | 70.5560 | 99.9776 | 44.7961 | 26752 | 11164 | 26753 | 6 | 6 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | map_siren | * | 8.7912 | 4.6512 | 80.0000 | 97.2376 | 4 | 82 | 4 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | map_siren | het | 11.3208 | 6.1224 | 75.0000 | 96.9466 | 3 | 46 | 3 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | map_siren | hetalt | 0.0000 | 100.0000 | 0 | 16 | 0 | 0 | 0 | ||||
| ckim-isaac | INDEL | I16_PLUS | map_siren | homalt | 9.0909 | 4.7619 | 100.0000 | 95.8333 | 1 | 20 | 1 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_siren | * | 63.4176 | 46.8852 | 97.9592 | 84.2105 | 143 | 162 | 144 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | I6_15 | map_siren | het | 65.4206 | 48.9510 | 98.5915 | 87.8425 | 70 | 73 | 70 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | hetalt | 68.4843 | 52.7778 | 97.5000 | 75.4601 | 38 | 34 | 39 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | homalt | 55.5556 | 38.8889 | 97.2222 | 80.4348 | 35 | 55 | 35 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | map_siren | * | 84.8645 | 73.7800 | 99.8686 | 51.5315 | 107887 | 38341 | 107900 | 142 | 41 | 28.8732 | |
| ckim-isaac | SNP | * | map_siren | het | 87.0731 | 77.2065 | 99.8309 | 53.7836 | 70251 | 20740 | 70263 | 119 | 18 | 15.1261 | |
| ckim-isaac | SNP | * | map_siren | hetalt | 72.4409 | 56.7901 | 100.0000 | 72.4551 | 46 | 35 | 46 | 0 | 0 | ||
| ckim-isaac | SNP | * | map_siren | homalt | 81.0505 | 68.1522 | 99.9707 | 46.5592 | 37590 | 17566 | 37591 | 11 | 11 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_siren | * | 88.5873 | 80.5990 | 98.3333 | 78.2801 | 2422 | 583 | 2419 | 41 | 12 | 29.2683 | |
| ckim-isaac | INDEL | I1_5 | map_siren | het | 91.7548 | 86.3772 | 97.8466 | 80.2288 | 1452 | 229 | 1454 | 32 | 7 | 21.8750 | |
| ckim-isaac | INDEL | I1_5 | map_siren | hetalt | 85.4934 | 76.7857 | 96.4286 | 82.2410 | 86 | 26 | 81 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | I1_5 | map_siren | homalt | 84.1104 | 72.9373 | 99.3258 | 73.3293 | 884 | 328 | 884 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | C1_5 | map_siren | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_siren | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C1_5 | map_siren | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_siren | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_siren | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C6_15 | map_siren | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.7129 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | het | 91.2085 | 96.1538 | 86.7470 | 95.9234 | 75 | 3 | 72 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | C16_PLUS | map_siren | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_siren | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | C16_PLUS | map_siren | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ckim-vqsr | SNP | * | map_siren | * | 85.1088 | 74.3093 | 99.5811 | 71.1680 | 108661 | 37567 | 108641 | 457 | 31 | 6.7834 | |
| ckim-vqsr | SNP | * | map_siren | het | 90.3081 | 82.7379 | 99.4031 | 73.7019 | 75284 | 15707 | 75273 | 452 | 26 | 5.7522 | |
| ckim-vqsr | SNP | * | map_siren | hetalt | 70.8661 | 55.5556 | 97.8261 | 87.6676 | 45 | 36 | 45 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_siren | homalt | 75.3334 | 60.4322 | 99.9880 | 62.9988 | 33332 | 21824 | 33323 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_siren | * | 82.2625 | 70.1676 | 99.3954 | 75.7194 | 32228 | 13702 | 32221 | 196 | 7 | 3.5714 | |
| ckim-vqsr | SNP | tv | map_siren | het | 88.5833 | 80.0482 | 99.1556 | 77.7872 | 22901 | 5708 | 22897 | 195 | 6 | 3.0769 | |
| ckim-vqsr | SNP | tv | map_siren | hetalt | 70.8661 | 55.5556 | 97.8261 | 87.6676 | 45 | 36 | 45 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_siren | homalt | 69.9947 | 53.8399 | 100.0000 | 68.1997 | 9282 | 7958 | 9279 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_siren | * | 98.9418 | 98.9474 | 98.9362 | 83.4662 | 7332 | 78 | 7347 | 79 | 18 | 22.7848 | |
| dgrover-gatk | INDEL | * | map_siren | het | 98.8042 | 98.8909 | 98.7177 | 84.1153 | 4458 | 50 | 4465 | 58 | 7 | 12.0690 | |
| dgrover-gatk | INDEL | * | map_siren | hetalt | 97.0971 | 94.7368 | 99.5781 | 87.1266 | 234 | 13 | 236 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_siren | homalt | 99.3423 | 99.4350 | 99.2498 | 81.7385 | 2640 | 15 | 2646 | 20 | 11 | 55.0000 | |
| ckim-vqsr | SNP | ti | map_siren | * | 86.3605 | 76.1935 | 99.6585 | 68.7036 | 76464 | 23891 | 76451 | 262 | 25 | 9.5420 | |
| ckim-vqsr | SNP | ti | map_siren | het | 91.0834 | 83.9713 | 99.5117 | 71.3937 | 52383 | 9999 | 52376 | 257 | 20 | 7.7821 | |
| ckim-vqsr | SNP | ti | map_siren | hetalt | 69.6629 | 54.3860 | 96.8750 | 86.4407 | 31 | 26 | 31 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_siren | homalt | 77.6182 | 63.4297 | 99.9834 | 60.5065 | 24050 | 13866 | 24044 | 4 | 4 | 100.0000 | |
| egarrison-hhga | INDEL | C1_5 | map_siren | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| egarrison-hhga | INDEL | C1_5 | map_siren | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||