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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8251-8300 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | * | map_l250_m2_e0 | * | 98.3456 | 98.0089 | 98.6847 | 88.0100 | 7728 | 157 | 7728 | 103 | 68 | 66.0194 | |
| rpoplin-dv42 | SNP | ti | map_l150_m0_e0 | * | 98.6405 | 98.3081 | 98.9751 | 78.2174 | 7728 | 133 | 7726 | 80 | 57 | 71.2500 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | het | 85.2256 | 76.2789 | 96.5500 | 86.2555 | 7724 | 2402 | 7724 | 276 | 229 | 82.9710 | |
| jlack-gatk | SNP | * | map_l250_m2_e0 | * | 93.5078 | 97.9074 | 89.4865 | 92.8768 | 7720 | 165 | 7720 | 907 | 67 | 7.3870 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 42.1139 | 37.4782 | 48.0583 | 42.5126 | 7719 | 12877 | 7710 | 8333 | 8271 | 99.2560 | |
| egarrison-hhga | SNP | * | map_l250_m2_e0 | * | 98.7146 | 97.8821 | 99.5614 | 88.2472 | 7718 | 167 | 7718 | 34 | 16 | 47.0588 | |
| ckim-vqsr | SNP | * | map_l125_m0_e0 | het | 75.2621 | 60.9365 | 98.3935 | 91.9254 | 7717 | 4947 | 7717 | 126 | 0 | 0.0000 | |
| jli-custom | SNP | ti | map_l150_m0_e0 | * | 98.8029 | 98.1682 | 99.4459 | 75.0426 | 7717 | 144 | 7717 | 43 | 19 | 44.1860 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 80.6675 | 73.6706 | 89.1329 | 45.4946 | 7717 | 2758 | 2313 | 282 | 188 | 66.6667 | |
| gduggal-bwafb | SNP | ti | map_l150_m0_e0 | * | 98.4686 | 98.1555 | 98.7838 | 81.2749 | 7716 | 145 | 7716 | 95 | 36 | 37.8947 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5549 | 95.7315 | 99.4491 | 28.9744 | 7715 | 344 | 7762 | 43 | 41 | 95.3488 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5549 | 95.7315 | 99.4491 | 28.9744 | 7715 | 344 | 7762 | 43 | 41 | 95.3488 | |
| dgrover-gatk | SNP | ti | map_l100_m0_e0 | homalt | 99.5677 | 99.2411 | 99.8964 | 59.9180 | 7715 | 59 | 7715 | 8 | 6 | 75.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9287 | 94.3839 | 99.6144 | 27.9429 | 7714 | 459 | 7750 | 30 | 29 | 96.6667 | |
| hfeng-pmm1 | INDEL | D6_15 | * | hetalt | 97.0865 | 94.3724 | 99.9614 | 34.0075 | 7714 | 460 | 7763 | 3 | 2 | 66.6667 | |
| ckim-gatk | SNP | tv | map_l150_m2_e0 | * | 79.8775 | 67.9260 | 96.9327 | 89.4279 | 7713 | 3642 | 7711 | 244 | 8 | 3.2787 | |
| ckim-gatk | INDEL | D6_15 | * | hetalt | 96.8620 | 94.3602 | 99.5001 | 32.9523 | 7713 | 461 | 7762 | 39 | 39 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | * | 94.8167 | 98.1046 | 91.7420 | 86.3569 | 7712 | 149 | 7710 | 694 | 68 | 9.7983 | |
| ckim-vqsr | INDEL | D6_15 | * | hetalt | 96.8555 | 94.3479 | 99.5000 | 32.9551 | 7712 | 462 | 7761 | 39 | 39 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l100_m0_e0 | homalt | 99.4968 | 99.1896 | 99.8059 | 56.2121 | 7711 | 63 | 7714 | 15 | 14 | 93.3333 | |
| rpoplin-dv42 | SNP | ti | map_l100_m0_e0 | homalt | 99.4451 | 99.1253 | 99.7670 | 62.0330 | 7706 | 68 | 7706 | 18 | 17 | 94.4444 | |
| ckim-dragen | SNP | * | map_l250_m2_e0 | * | 97.2970 | 97.6791 | 96.9179 | 89.7648 | 7702 | 183 | 7704 | 245 | 31 | 12.6531 | |
| gduggal-bwafb | SNP | ti | map_l100_m0_e0 | homalt | 99.4445 | 99.0224 | 99.8703 | 64.5919 | 7698 | 76 | 7698 | 10 | 6 | 60.0000 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | hetalt | 96.9335 | 94.4301 | 99.5733 | 24.1244 | 7697 | 454 | 7701 | 33 | 33 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | hetalt | 96.9271 | 94.4179 | 99.5733 | 24.1268 | 7696 | 455 | 7700 | 33 | 33 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 94.1392 | 0.0000 | 0.0000 | 7694 | 479 | 0 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D6_15 | * | hetalt | 96.9508 | 94.1277 | 99.9483 | 34.1160 | 7694 | 480 | 7740 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002compoundhet | hetalt | 97.0967 | 94.3688 | 99.9870 | 24.8266 | 7692 | 459 | 7696 | 1 | 0 | 0.0000 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e0 | * | 90.6036 | 97.5016 | 84.6171 | 92.0596 | 7688 | 197 | 7613 | 1384 | 44 | 3.1792 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | * | 97.8174 | 97.4762 | 98.1609 | 89.8565 | 7686 | 199 | 7686 | 144 | 38 | 26.3889 | |
| astatham-gatk | SNP | ti | map_l100_m0_e0 | homalt | 99.3534 | 98.8294 | 99.8830 | 59.4667 | 7683 | 91 | 7683 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | * | 95.6186 | 97.4255 | 93.8776 | 91.4090 | 7682 | 203 | 7682 | 501 | 87 | 17.3653 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6905 | 93.9802 | 99.5617 | 36.0300 | 7681 | 492 | 7723 | 34 | 34 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_l150_m2_e1 | homalt | 99.8689 | 99.8310 | 99.9067 | 75.1753 | 7680 | 13 | 7499 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l125_m1_e0 | het | 86.0971 | 75.8345 | 99.5720 | 79.9490 | 7679 | 2447 | 7677 | 33 | 8 | 24.2424 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e1 | homalt | 99.8050 | 99.8180 | 99.7921 | 73.2339 | 7679 | 14 | 7679 | 16 | 7 | 43.7500 | |
| jli-custom | SNP | * | map_l250_m2_e0 | * | 98.2912 | 97.3874 | 99.2119 | 86.5904 | 7679 | 206 | 7679 | 61 | 30 | 49.1803 | |
| hfeng-pmm3 | SNP | ti | map_l150_m2_e1 | homalt | 99.7920 | 99.7790 | 99.8050 | 73.1684 | 7676 | 17 | 7676 | 15 | 6 | 40.0000 | |
| ghariani-varprowl | SNP | ti | map_l150_m0_e0 | * | 96.8336 | 97.6466 | 96.0340 | 83.6908 | 7676 | 185 | 7676 | 317 | 83 | 26.1830 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | het | 98.0583 | 96.6751 | 99.4816 | 79.2753 | 7676 | 264 | 7676 | 40 | 17 | 42.5000 | |
| ndellapenna-hhga | SNP | ti | map_l150_m0_e0 | * | 98.6696 | 97.6466 | 99.7142 | 77.5024 | 7676 | 185 | 7676 | 22 | 11 | 50.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | homalt | 99.7855 | 99.7660 | 99.8049 | 73.2531 | 7675 | 18 | 7675 | 15 | 6 | 40.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | * | hetalt | 96.8203 | 93.8708 | 99.9612 | 33.0763 | 7673 | 501 | 7722 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8385 | 93.8823 | 99.9870 | 28.1495 | 7673 | 500 | 7710 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.9666 | 94.1234 | 99.9870 | 24.8188 | 7672 | 479 | 7675 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | HG002compoundhet | * | 88.7012 | 84.9518 | 92.7969 | 32.0774 | 7672 | 1359 | 8799 | 683 | 663 | 97.0717 | |
| bgallagher-sentieon | INDEL | D6_15 | * | hetalt | 96.5632 | 93.7974 | 99.4971 | 32.7057 | 7667 | 507 | 7716 | 39 | 38 | 97.4359 | |
| egarrison-hhga | SNP | ti | map_l150_m2_e1 | homalt | 99.7853 | 99.6620 | 99.9088 | 73.2343 | 7667 | 26 | 7667 | 7 | 7 | 100.0000 | |