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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83301-83350 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | * | segdup | * | 96.6280 | 98.6033 | 94.7303 | 91.0474 | 27675 | 392 | 27504 | 1530 | 201 | 13.1373 | |
| gduggal-snapfb | SNP | * | map_l125_m1_e0 | het | 96.3552 | 97.4817 | 95.2545 | 71.3326 | 27677 | 715 | 27680 | 1379 | 599 | 43.4373 | |
| hfeng-pmm3 | INDEL | * | HG002compoundhet | * | 94.8142 | 92.3999 | 97.3580 | 58.7757 | 27683 | 2277 | 27564 | 748 | 724 | 96.7914 | |
| anovak-vg | SNP | ti | map_l100_m2_e0 | het | 80.8461 | 90.4056 | 73.1149 | 73.2980 | 27684 | 2938 | 27470 | 10101 | 2208 | 21.8592 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1859 | 99.0236 | 91.6345 | 64.6332 | 27686 | 273 | 27790 | 2537 | 281 | 11.0761 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3239 | 99.0379 | 99.6116 | 52.2441 | 27690 | 269 | 27695 | 108 | 53 | 49.0741 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2991 | 99.0593 | 97.5505 | 61.1472 | 27696 | 263 | 27758 | 697 | 164 | 23.5294 | |
| jli-custom | SNP | * | map_l100_m2_e1 | homalt | 99.7946 | 99.6510 | 99.9387 | 59.6958 | 27699 | 97 | 27699 | 17 | 16 | 94.1176 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.7857 | 99.6546 | 99.9170 | 62.4746 | 27700 | 96 | 27700 | 23 | 21 | 91.3043 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5168 | 99.0808 | 99.9567 | 54.7993 | 27702 | 257 | 27701 | 12 | 5 | 41.6667 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | homalt | 99.7911 | 99.6654 | 99.9170 | 60.2187 | 27703 | 93 | 27703 | 23 | 18 | 78.2609 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.4995 | 98.0432 | 98.9602 | 56.0148 | 27707 | 553 | 27695 | 291 | 283 | 97.2509 | |
| gduggal-snapplat | SNP | * | segdup | * | 98.9750 | 98.7209 | 99.2304 | 93.4858 | 27708 | 359 | 27723 | 215 | 30 | 13.9535 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | homalt | 99.8127 | 99.6906 | 99.9351 | 60.3846 | 27710 | 86 | 27708 | 18 | 16 | 88.8889 | |
| anovak-vg | SNP | * | map_l150_m2_e1 | * | 79.7323 | 86.0571 | 74.2735 | 80.0613 | 27719 | 4491 | 27398 | 9490 | 2194 | 23.1191 | |
| raldana-dualsentieon | SNP | * | map_l100_m2_e1 | homalt | 99.8307 | 99.7302 | 99.9315 | 59.5367 | 27721 | 75 | 27721 | 19 | 15 | 78.9474 | |
| ltrigg-rtg1 | SNP | * | map_l100_m2_e1 | homalt | 99.8200 | 99.7446 | 99.8955 | 62.4711 | 27725 | 71 | 27724 | 29 | 26 | 89.6552 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.8506 | 99.7698 | 99.9315 | 63.4220 | 27732 | 64 | 27732 | 19 | 18 | 94.7368 | |
| hfeng-pmm1 | INDEL | * | HG002compoundhet | * | 94.8334 | 92.5834 | 97.1953 | 59.6665 | 27738 | 2222 | 27620 | 797 | 774 | 97.1142 | |
| ltrigg-rtg1 | SNP | * | map_l125_m1_e0 | het | 98.7065 | 97.7001 | 99.7339 | 59.7345 | 27739 | 653 | 27739 | 74 | 12 | 16.2162 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | * | 94.6829 | 92.5968 | 96.8651 | 60.5702 | 27742 | 2218 | 27624 | 894 | 877 | 98.0984 | |
| qzeng-custom | SNP | * | segdup | * | 98.6778 | 98.8634 | 98.4928 | 92.2719 | 27748 | 319 | 27512 | 421 | 68 | 16.1520 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e1 | homalt | 99.8561 | 99.8381 | 99.8740 | 63.2761 | 27751 | 45 | 27751 | 35 | 17 | 48.5714 | |
| hfeng-pmm1 | SNP | * | map_l100_m2_e1 | homalt | 99.8597 | 99.8453 | 99.8740 | 63.3660 | 27753 | 43 | 27753 | 35 | 17 | 48.5714 | |
| eyeh-varpipe | SNP | * | map_l100_m2_e1 | homalt | 99.8719 | 99.8597 | 99.8841 | 65.3160 | 27757 | 39 | 26718 | 31 | 16 | 51.6129 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0978 | 99.2811 | 98.9152 | 61.5160 | 27758 | 201 | 27902 | 306 | 67 | 21.8954 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | homalt | 99.8687 | 99.8741 | 99.8633 | 63.3911 | 27761 | 35 | 27761 | 38 | 19 | 50.0000 | |
| gduggal-snapplat | SNP | * | map_l125_m2_e1 | het | 93.8837 | 93.6910 | 94.0772 | 85.0315 | 27770 | 1870 | 27797 | 1750 | 928 | 53.0286 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.7858 | 98.2767 | 99.3002 | 57.2345 | 27773 | 487 | 27812 | 196 | 123 | 62.7551 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5289 | 99.3598 | 99.6985 | 56.1737 | 27780 | 179 | 27779 | 84 | 9 | 10.7143 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | * | 93.3591 | 92.7336 | 93.9930 | 68.4001 | 27783 | 2177 | 27758 | 1774 | 1747 | 98.4780 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8170 | 99.3884 | 96.2946 | 56.5927 | 27788 | 171 | 27079 | 1042 | 134 | 12.8599 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | * | 93.9622 | 92.7503 | 95.2061 | 62.6940 | 27788 | 2172 | 27665 | 1393 | 1381 | 99.1385 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | het | 94.0558 | 97.9149 | 90.4894 | 82.0185 | 27800 | 592 | 27478 | 2888 | 162 | 5.6094 | |
| ckim-gatk | INDEL | * | HG002compoundhet | * | 93.9895 | 92.8338 | 95.1743 | 62.6651 | 27813 | 2147 | 27690 | 1404 | 1391 | 99.0741 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | het | 98.8381 | 97.9748 | 99.7168 | 68.7996 | 27817 | 575 | 27817 | 79 | 36 | 45.5696 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4714 | 99.5136 | 99.4293 | 48.5634 | 27823 | 136 | 27875 | 160 | 12 | 7.5000 | |
| gduggal-snapvard | SNP | tv | map_siren | het | 94.6657 | 97.2841 | 92.1846 | 72.3745 | 27832 | 777 | 27719 | 2350 | 198 | 8.4255 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5464 | 99.5815 | 99.5114 | 49.8381 | 27842 | 117 | 27901 | 137 | 8 | 5.8394 | |
| jpowers-varprowl | SNP | * | segdup | * | 98.1671 | 99.2090 | 97.1467 | 91.9113 | 27845 | 222 | 27851 | 818 | 71 | 8.6797 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6177 | 99.6495 | 99.5860 | 52.1198 | 27861 | 98 | 27903 | 116 | 33 | 28.4483 | |
| jmaeng-gatk | SNP | * | segdup | * | 98.5236 | 99.2803 | 97.7783 | 93.6584 | 27865 | 202 | 27859 | 633 | 14 | 2.2117 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4185 | 97.0953 | 97.7438 | 76.1583 | 27878 | 834 | 27900 | 644 | 34 | 5.2795 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7157 | 99.7174 | 99.7139 | 56.2929 | 27880 | 79 | 27879 | 80 | 10 | 12.5000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0020 | 98.6553 | 99.3511 | 53.3614 | 27880 | 380 | 59096 | 386 | 365 | 94.5596 | |
| ckim-gatk | SNP | * | segdup | * | 98.8880 | 99.3409 | 98.4392 | 93.5811 | 27882 | 185 | 27876 | 442 | 14 | 3.1674 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6801 | 99.7532 | 99.6071 | 56.0538 | 27890 | 69 | 27889 | 110 | 11 | 10.0000 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4351 | 99.7890 | 99.0837 | 56.5880 | 27900 | 59 | 27899 | 258 | 21 | 8.1395 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.4953 | 90.7025 | 92.3021 | 74.5517 | 27901 | 2860 | 27890 | 2326 | 2006 | 86.2425 | |