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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83901-83950 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | * | map_l150_m2_e0 | * | 99.0736 | 98.8855 | 99.2624 | 74.9915 | 31497 | 355 | 31491 | 234 | 152 | 64.9573 | |
| ckim-dragen | SNP | * | map_l150_m2_e0 | * | 98.2382 | 98.8980 | 97.5872 | 78.4892 | 31501 | 351 | 31507 | 779 | 94 | 12.0668 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | * | 99.3568 | 98.9326 | 99.7847 | 74.8691 | 31512 | 340 | 31512 | 68 | 32 | 47.0588 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.7995 | 97.9339 | 99.6807 | 49.2515 | 31331 | 661 | 31528 | 101 | 86 | 85.1485 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e0 | * | 98.9691 | 99.0236 | 98.9147 | 75.5843 | 31541 | 311 | 31535 | 346 | 12 | 3.4682 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.4672 | 95.4477 | 99.5740 | 49.7805 | 2537 | 121 | 31556 | 135 | 135 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.3810 | 94.8490 | 75.9939 | 75.6668 | 31524 | 1712 | 31558 | 9969 | 9887 | 99.1775 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e0 | * | 99.3518 | 99.1272 | 99.5773 | 75.1179 | 31574 | 278 | 31568 | 134 | 37 | 27.6119 | |
| dgrover-gatk | SNP | * | map_l150_m2_e0 | * | 99.1679 | 99.1680 | 99.1679 | 78.4218 | 31587 | 265 | 31581 | 265 | 60 | 22.6415 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | * | 98.9386 | 98.1062 | 99.7853 | 68.9443 | 31600 | 610 | 31606 | 68 | 22 | 32.3529 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | * | 94.9074 | 97.4514 | 92.4929 | 77.7735 | 32004 | 837 | 31615 | 2566 | 141 | 5.4949 | |
| mlin-fermikit | INDEL | I1_5 | HG002complexvar | * | 96.3771 | 95.3032 | 97.4754 | 51.5661 | 31796 | 1567 | 31622 | 819 | 800 | 97.6801 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e0 | * | 99.1151 | 99.3470 | 98.8842 | 77.1865 | 31644 | 208 | 31638 | 357 | 62 | 17.3669 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e0 | * | 99.2475 | 99.3878 | 99.1076 | 77.7218 | 31657 | 195 | 31651 | 285 | 34 | 11.9298 | |
| gduggal-snapfb | SNP | * | map_l100_m0_e0 | * | 96.4309 | 96.3734 | 96.4883 | 71.4997 | 31650 | 1191 | 31653 | 1152 | 513 | 44.5312 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e0 | * | 99.4612 | 99.4035 | 99.5190 | 75.5411 | 31662 | 190 | 31656 | 153 | 23 | 15.0327 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002complexvar | * | 97.3122 | 96.7874 | 97.8426 | 54.8110 | 31664 | 1051 | 31656 | 698 | 573 | 82.0917 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e1 | * | 99.0401 | 98.3421 | 99.7481 | 73.9108 | 31676 | 534 | 31676 | 80 | 40 | 50.0000 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 65.7662 | 77.6219 | 57.0522 | 44.3331 | 11346 | 3271 | 31729 | 23885 | 20828 | 87.2012 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | * | 97.6142 | 98.5067 | 96.7377 | 80.7467 | 31729 | 481 | 31729 | 1070 | 224 | 20.9346 | |
| asubramanian-gatk | SNP | * | map_siren | homalt | 73.1014 | 57.6093 | 99.9906 | 63.4885 | 31775 | 23381 | 31766 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | SNP | * | map_l100_m0_e0 | * | 97.2063 | 96.7297 | 97.6876 | 74.3551 | 31767 | 1074 | 31768 | 752 | 236 | 31.3830 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e1 | * | 98.6663 | 98.6464 | 98.6862 | 78.1729 | 31774 | 436 | 31774 | 423 | 108 | 25.5319 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8145 | 96.7836 | 96.8455 | 61.4159 | 32167 | 1069 | 31775 | 1035 | 815 | 78.7440 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | * | 95.6027 | 98.6992 | 92.6947 | 83.7025 | 31791 | 419 | 31785 | 2505 | 193 | 7.7046 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | * | 97.4539 | 97.1695 | 97.7400 | 55.3894 | 31789 | 926 | 31787 | 735 | 582 | 79.1837 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | * | 78.0470 | 64.2498 | 99.3903 | 82.5096 | 31794 | 17691 | 31789 | 195 | 15 | 7.6923 | |
| cchapple-custom | SNP | * | map_l100_m0_e0 | * | 96.7025 | 96.7997 | 96.6055 | 71.5936 | 31790 | 1051 | 31789 | 1117 | 256 | 22.9185 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | * | 99.0777 | 98.8916 | 99.2644 | 75.0455 | 31853 | 357 | 31847 | 236 | 152 | 64.4068 | |
| jli-custom | SNP | * | map_l150_m2_e1 | * | 99.1717 | 98.8823 | 99.4628 | 73.1735 | 31850 | 360 | 31847 | 172 | 59 | 34.3023 | |
| gduggal-bwafb | INDEL | D1_5 | HG002complexvar | * | 98.0343 | 97.0289 | 99.0607 | 56.8977 | 31743 | 972 | 31851 | 302 | 219 | 72.5166 | |
| eyeh-varpipe | SNP | * | map_l100_m0_e0 | * | 98.1181 | 99.6468 | 96.6356 | 72.2026 | 32725 | 116 | 31854 | 1109 | 29 | 2.6150 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | * | 98.2286 | 98.8948 | 97.5714 | 78.5708 | 31854 | 356 | 31860 | 793 | 96 | 12.1059 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | * | 99.3609 | 98.9413 | 99.7840 | 74.9205 | 31869 | 341 | 31869 | 69 | 32 | 46.3768 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | * | 98.9667 | 99.0283 | 98.9052 | 75.6537 | 31897 | 313 | 31891 | 353 | 12 | 3.3994 | |
| gduggal-snapfb | INDEL | I1_5 | HG002complexvar | * | 93.5109 | 94.6378 | 92.4106 | 55.4813 | 31574 | 1789 | 31902 | 2620 | 888 | 33.8931 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e1 | * | 99.3543 | 99.1307 | 99.5789 | 75.1677 | 31930 | 280 | 31924 | 135 | 37 | 27.4074 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | * | 99.1741 | 99.1773 | 99.1710 | 78.4616 | 31945 | 265 | 31939 | 267 | 60 | 22.4719 | |
| cchapple-custom | INDEL | I1_5 | HG002complexvar | * | 99.1800 | 98.7291 | 99.6350 | 52.8581 | 32939 | 424 | 31939 | 117 | 104 | 88.8889 | |
| ckim-isaac | SNP | tv | map_siren | * | 81.9877 | 69.5646 | 99.8126 | 55.0084 | 31951 | 13979 | 31956 | 60 | 25 | 41.6667 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | * | 99.1218 | 99.3542 | 98.8904 | 77.2353 | 32002 | 208 | 31996 | 359 | 62 | 17.2702 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | * | 99.2528 | 99.3946 | 99.1113 | 77.7651 | 32015 | 195 | 32009 | 287 | 34 | 11.8467 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | * | 99.4641 | 99.4070 | 99.5212 | 75.5898 | 32019 | 191 | 32013 | 154 | 23 | 14.9351 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7763 | 96.4226 | 95.1386 | 69.4450 | 32047 | 1189 | 32017 | 1636 | 1576 | 96.3325 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.1642 | 83.2621 | 85.0860 | 71.1301 | 31558 | 6344 | 32017 | 5612 | 5145 | 91.6785 | |
| ltrigg-rtg2 | SNP | * | map_l100_m0_e0 | * | 98.7191 | 97.6280 | 99.8350 | 53.7664 | 32062 | 779 | 32065 | 53 | 9 | 16.9811 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | * | 99.1020 | 98.6275 | 99.5810 | 54.4390 | 32266 | 449 | 32088 | 135 | 85 | 62.9630 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 89.0060 | 88.0657 | 89.9667 | 48.3054 | 32225 | 4367 | 32137 | 3584 | 3498 | 97.6004 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | * | 99.1938 | 98.8812 | 99.5083 | 54.2253 | 32349 | 366 | 32179 | 159 | 100 | 62.8931 | |