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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
82101-82150 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I16_PLUS | segdup | * | 96.7742 | 95.7447 | 97.8261 | 96.5388 | 45 | 2 | 45 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | segdup | het | 95.8333 | 95.8333 | 95.8333 | 97.0223 | 23 | 1 | 23 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | segdup | hetalt | 85.7143 | 75.0000 | 100.0000 | 98.0645 | 3 | 1 | 3 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 94.8370 | 19 | 0 | 19 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | segdup | * | 95.3193 | 98.8669 | 92.0175 | 95.4565 | 1047 | 12 | 1049 | 91 | 3 | 3.2967 | |
| jlack-gatk | INDEL | I1_5 | segdup | het | 91.7231 | 98.6989 | 85.6683 | 96.3967 | 531 | 7 | 532 | 89 | 1 | 1.1236 | |
| jlack-gatk | INDEL | I1_5 | segdup | hetalt | 97.8723 | 95.8333 | 100.0000 | 96.2036 | 46 | 2 | 47 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | segdup | homalt | 99.4709 | 99.3658 | 99.5763 | 92.8690 | 470 | 3 | 470 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | segdup | * | 98.4574 | 99.8106 | 97.1403 | 92.8551 | 19500 | 37 | 19498 | 574 | 10 | 1.7422 | |
| jlack-gatk | SNP | ti | segdup | het | 97.5937 | 99.8088 | 95.4748 | 94.2828 | 12007 | 23 | 12005 | 569 | 5 | 0.8787 | |
| jlack-gatk | SNP | ti | segdup | hetalt | 80.0000 | 100.0000 | 66.6667 | 98.9324 | 2 | 0 | 2 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | ti | segdup | homalt | 99.8800 | 99.8135 | 99.9466 | 87.6556 | 7491 | 14 | 7491 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | segdup | * | 92.8571 | 95.2880 | 90.5473 | 94.7561 | 182 | 9 | 182 | 19 | 5 | 26.3158 | |
| jlack-gatk | INDEL | D6_15 | segdup | het | 90.9091 | 97.8261 | 84.9057 | 96.1483 | 90 | 2 | 90 | 16 | 2 | 12.5000 | |
| jlack-gatk | INDEL | D6_15 | segdup | hetalt | 92.3077 | 85.7143 | 100.0000 | 90.2552 | 42 | 7 | 42 | 0 | 0 | ||
| jlack-gatk | INDEL | D6_15 | segdup | homalt | 97.0874 | 100.0000 | 94.3396 | 91.8462 | 50 | 0 | 50 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | segdup | * | 97.7319 | 99.7890 | 95.7578 | 94.5195 | 8514 | 18 | 8510 | 377 | 7 | 1.8568 | |
| jlack-gatk | SNP | tv | segdup | het | 96.4748 | 99.7163 | 93.4374 | 95.6607 | 5272 | 15 | 5268 | 370 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | segdup | hetalt | 93.3333 | 100.0000 | 87.5000 | 98.2533 | 7 | 0 | 7 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.7982 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | * | segdup | * | 98.2374 | 99.8040 | 96.7192 | 93.4608 | 28012 | 55 | 28006 | 950 | 16 | 1.6842 | |
| jlack-gatk | SNP | * | segdup | het | 97.2497 | 99.7806 | 94.8441 | 94.7945 | 17279 | 38 | 17273 | 939 | 5 | 0.5325 | |
| jlack-gatk | SNP | * | segdup | hetalt | 93.3333 | 100.0000 | 87.5000 | 98.2533 | 7 | 0 | 7 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | * | segdup | homalt | 99.8743 | 99.8418 | 99.9069 | 88.3916 | 10726 | 17 | 10726 | 10 | 10 | 100.0000 | |
| jlack-gatk | INDEL | C16_PLUS | segdup | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | segdup | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | segdup | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | D16_PLUS | segdup | * | 96.5517 | 96.5517 | 96.5517 | 97.0272 | 56 | 2 | 56 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | D16_PLUS | segdup | het | 97.2973 | 100.0000 | 94.7368 | 97.4717 | 37 | 0 | 36 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | D16_PLUS | segdup | hetalt | 87.5000 | 77.7778 | 100.0000 | 93.1624 | 7 | 2 | 8 | 0 | 0 | ||
| jlack-gatk | INDEL | D16_PLUS | segdup | homalt | 100.0000 | 100.0000 | 100.0000 | 96.3746 | 12 | 0 | 12 | 0 | 0 | ||
| jlack-gatk | INDEL | * | segdup | * | 95.2733 | 98.4742 | 92.2739 | 95.5954 | 2517 | 39 | 2520 | 211 | 15 | 7.1090 | |
| jlack-gatk | INDEL | * | segdup | het | 92.8494 | 98.6357 | 87.7044 | 96.3215 | 1446 | 20 | 1448 | 203 | 7 | 3.4483 | |
| jlack-gatk | INDEL | * | segdup | hetalt | 94.3089 | 89.2308 | 100.0000 | 94.9936 | 116 | 14 | 117 | 0 | 0 | ||
| jlack-gatk | INDEL | * | segdup | homalt | 99.3240 | 99.4792 | 99.1693 | 93.4858 | 955 | 5 | 955 | 8 | 8 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 98.8764 | 2 | 0 | 2 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | segdup | homalt | 99.9600 | 99.9600 | 99.9600 | 88.1690 | 7502 | 3 | 7502 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | segdup | * | 99.7247 | 99.7890 | 99.6604 | 90.6553 | 8514 | 18 | 8510 | 29 | 5 | 17.2414 | |
| hfeng-pmm3 | SNP | tv | segdup | het | 99.6218 | 99.6974 | 99.5464 | 90.8847 | 5271 | 16 | 5267 | 24 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | segdup | hetalt | 100.0000 | 100.0000 | 100.0000 | 97.5352 | 7 | 0 | 7 | 0 | 0 | ||
| hfeng-pmm3 | SNP | tv | segdup | homalt | 99.8920 | 99.9382 | 99.8457 | 90.1933 | 3236 | 2 | 3236 | 5 | 5 | 100.0000 | |
| jlack-gatk | INDEL | C6_15 | segdup | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C6_15 | segdup | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C6_15 | segdup | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C6_15 | segdup | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | D1_5 | segdup | * | 95.5828 | 98.9121 | 92.4704 | 95.7903 | 1091 | 12 | 1093 | 89 | 5 | 5.6180 | |
| jlack-gatk | INDEL | D1_5 | segdup | het | 93.5227 | 98.8439 | 88.7451 | 96.2758 | 684 | 8 | 686 | 87 | 3 | 3.4483 | |
| jlack-gatk | INDEL | D1_5 | segdup | hetalt | 97.0297 | 94.2308 | 100.0000 | 95.7018 | 49 | 3 | 49 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | segdup | homalt | 99.5828 | 99.7214 | 99.4444 | 94.1766 | 358 | 1 | 358 | 2 | 2 | 100.0000 | |