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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5051-5100 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.3079 | 82.7701 | 83.8526 | 37.1677 | 15113 | 3146 | 15179 | 2923 | 2748 | 94.0130 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2509 | 96.9956 | 99.5391 | 72.8687 | 15109 | 468 | 15117 | 70 | 47 | 67.1429 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9305 | 96.9699 | 98.9103 | 71.3156 | 15105 | 472 | 17790 | 196 | 180 | 91.8367 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9893 | 96.9635 | 99.0370 | 71.9042 | 15104 | 473 | 15118 | 147 | 133 | 90.4762 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | het | 98.7963 | 97.9633 | 99.6436 | 50.7412 | 15103 | 314 | 15098 | 54 | 2 | 3.7037 | |
| ciseli-custom | SNP | * | map_l100_m0_e0 | het | 77.1628 | 71.2049 | 84.2088 | 78.9054 | 15099 | 6106 | 15086 | 2829 | 99 | 3.4995 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6760 | 96.8929 | 98.4720 | 68.6413 | 15093 | 484 | 15080 | 234 | 134 | 57.2650 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2521 | 96.8864 | 99.6568 | 72.9143 | 15092 | 485 | 15100 | 52 | 45 | 86.5385 | |
| mlin-fermikit | SNP | * | map_l100_m0_e0 | * | 59.6148 | 45.9548 | 84.8308 | 53.4081 | 15092 | 17749 | 15088 | 2698 | 2419 | 89.6590 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | het | 94.7477 | 94.6794 | 94.8162 | 82.9388 | 15090 | 848 | 15090 | 825 | 397 | 48.1212 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 55.6919 | 47.1555 | 68.0020 | 66.7689 | 15086 | 16906 | 17977 | 8459 | 3479 | 41.1278 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9991 | 96.8351 | 99.1915 | 73.1225 | 15084 | 493 | 15091 | 123 | 94 | 76.4228 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1995 | 96.8094 | 99.6302 | 71.4676 | 15080 | 497 | 15087 | 56 | 47 | 83.9286 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.6842 | 90.2604 | 99.5639 | 40.3949 | 15078 | 1627 | 15298 | 67 | 60 | 89.5522 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.6842 | 90.2604 | 99.5639 | 40.3949 | 15078 | 1627 | 15298 | 67 | 60 | 89.5522 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1341 | 96.7259 | 99.5838 | 73.0521 | 15067 | 510 | 15075 | 63 | 45 | 71.4286 | |
| ciseli-custom | SNP | * | map_l125_m2_e0 | homalt | 88.1697 | 86.6763 | 89.7155 | 68.5746 | 15060 | 2315 | 15013 | 1721 | 1379 | 80.1278 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | * | 65.6433 | 49.1783 | 98.6821 | 91.1099 | 15053 | 15556 | 15050 | 201 | 2 | 0.9950 | |
| gduggal-snapplat | SNP | * | map_l125_m1_e0 | homalt | 94.1655 | 89.0269 | 99.9336 | 67.4179 | 15050 | 1855 | 15040 | 10 | 9 | 90.0000 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | * | 93.3644 | 91.2184 | 95.6138 | 83.0664 | 15041 | 1448 | 15041 | 690 | 359 | 52.0290 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 48.9009 | 46.9867 | 50.9776 | 50.1691 | 15032 | 16960 | 15018 | 14442 | 14205 | 98.3590 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | het | 92.4877 | 97.3990 | 88.0480 | 78.4967 | 15016 | 401 | 14962 | 2031 | 139 | 6.8439 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e1 | het | 65.2727 | 48.4981 | 99.7873 | 85.9875 | 15015 | 15945 | 15011 | 32 | 12 | 37.5000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.4540 | 96.3472 | 98.5866 | 68.3439 | 15008 | 569 | 14997 | 215 | 126 | 58.6047 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e1 | * | 71.2430 | 59.3165 | 89.1725 | 57.7345 | 14997 | 10286 | 14989 | 1820 | 1600 | 87.9121 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7417 | 84.0451 | 91.7784 | 50.9056 | 14976 | 2843 | 21221 | 1901 | 1763 | 92.7407 | |
| jpowers-varprowl | SNP | tv | map_l100_m1_e0 | het | 96.9444 | 97.1330 | 96.7565 | 74.5209 | 14975 | 442 | 14975 | 502 | 99 | 19.7211 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.1071 | 96.8411 | 99.4065 | 70.7611 | 14930 | 487 | 15409 | 92 | 91 | 98.9130 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e0 | het | 94.7121 | 94.6314 | 94.7930 | 82.9183 | 14930 | 847 | 14928 | 820 | 395 | 48.1707 | |
| asubramanian-gatk | SNP | * | map_l125_m2_e1 | * | 47.9740 | 31.5792 | 99.7724 | 91.5607 | 14906 | 32296 | 14903 | 34 | 8 | 23.5294 | |
| ckim-gatk | SNP | ti | map_l125_m1_e0 | het | 88.7011 | 81.4464 | 97.3746 | 85.8996 | 14877 | 3389 | 14873 | 401 | 40 | 9.9751 | |
| ciseli-custom | SNP | ti | HG002compoundhet | * | 76.3715 | 85.1127 | 69.2586 | 41.8951 | 14876 | 2602 | 14928 | 6626 | 715 | 10.7908 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 57.8916 | 83.4278 | 44.3245 | 56.1428 | 14866 | 2953 | 14940 | 18766 | 18665 | 99.4618 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 41.5565 | 39.2117 | 44.1996 | 50.5594 | 14862 | 23040 | 14844 | 18740 | 18573 | 99.1089 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 64.5823 | 60.5420 | 69.2004 | 40.5056 | 14857 | 9683 | 14739 | 6560 | 6397 | 97.5152 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | het | 88.5520 | 81.2876 | 97.2421 | 86.2223 | 14848 | 3418 | 14844 | 421 | 39 | 9.2637 | |
| ckim-isaac | SNP | tv | map_l100_m1_e0 | * | 75.3790 | 60.5730 | 99.7648 | 65.1235 | 14841 | 9660 | 14844 | 35 | 12 | 34.2857 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.5741 | 90.2916 | 94.9750 | 58.0257 | 14834 | 1595 | 15952 | 844 | 289 | 34.2417 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8320 | 96.0887 | 99.6397 | 60.4528 | 14814 | 603 | 14932 | 54 | 53 | 98.1481 | |
| qzeng-custom | SNP | tv | map_siren | homalt | 92.1926 | 85.9107 | 99.4656 | 52.8075 | 14811 | 2429 | 14705 | 79 | 75 | 94.9367 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | * | 71.0756 | 59.1180 | 89.0970 | 57.6083 | 14799 | 10234 | 14791 | 1810 | 1594 | 88.0663 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7545 | 95.9460 | 99.6325 | 60.1730 | 14792 | 625 | 14910 | 55 | 54 | 98.1818 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9045 | 95.9136 | 99.9799 | 60.6514 | 14787 | 630 | 14905 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | het | 65.0317 | 48.2333 | 99.7838 | 86.0511 | 14770 | 15852 | 14766 | 32 | 12 | 37.5000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.4147 | 91.9985 | 88.8845 | 55.6709 | 14763 | 1284 | 15793 | 1975 | 866 | 43.8481 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8168 | 95.7514 | 99.9731 | 60.5697 | 14762 | 655 | 14877 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8950 | 99.8510 | 99.9390 | 54.8240 | 14748 | 22 | 14750 | 9 | 4 | 44.4444 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8578 | 99.8307 | 99.8849 | 56.2250 | 14745 | 25 | 14747 | 17 | 4 | 23.5294 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.3491 | 46.0834 | 48.6863 | 59.5527 | 14743 | 17249 | 14732 | 15527 | 15257 | 98.2611 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8747 | 99.8104 | 99.9390 | 55.0186 | 14742 | 28 | 14744 | 9 | 4 | 44.4444 | |