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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67351-67400 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.0757 | 76.5957 | 98.2337 | 44.2424 | 468 | 143 | 1446 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.3342 | 95.5238 | 97.1585 | 61.3924 | 1003 | 47 | 889 | 26 | 23 | 88.4615 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.0824 | 98.8212 | 99.3451 | 39.8485 | 3940 | 47 | 3944 | 26 | 15 | 57.6923 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 87.2466 | 79.7847 | 96.2482 | 67.1252 | 667 | 169 | 667 | 26 | 23 | 88.4615 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6796 | 99.7755 | 99.5839 | 69.4549 | 6222 | 14 | 6222 | 26 | 19 | 73.0769 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.8628 | 99.8712 | 99.8543 | 55.6453 | 17828 | 23 | 17825 | 26 | 14 | 53.8462 | |
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | homalt | 99.5372 | 99.3119 | 99.7635 | 66.3061 | 10969 | 76 | 10969 | 26 | 25 | 96.1538 | |
| rpoplin-dv42 | SNP | tv | HG002compoundhet | * | 99.6523 | 99.5965 | 99.7081 | 48.4905 | 8887 | 36 | 8880 | 26 | 19 | 73.0769 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.0478 | 92.5550 | 97.6786 | 60.5911 | 1094 | 88 | 1094 | 26 | 23 | 88.4615 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002complexvar | het | 95.7688 | 92.6603 | 99.0931 | 57.6076 | 2891 | 229 | 2841 | 26 | 24 | 92.3077 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6063 | 94.2548 | 99.0780 | 47.3389 | 2789 | 170 | 2794 | 26 | 6 | 23.0769 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7262 | 94.6148 | 98.9340 | 44.5934 | 2407 | 137 | 2413 | 26 | 2 | 7.6923 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | het | 78.6364 | 64.9145 | 99.7144 | 71.0617 | 9077 | 4906 | 9078 | 26 | 3 | 11.5385 | |
| ckim-isaac | SNP | ti | map_l150_m2_e0 | het | 75.7150 | 61.0434 | 99.6704 | 79.9741 | 7863 | 5018 | 7863 | 26 | 2 | 7.6923 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6143 | 93.9646 | 99.4178 | 33.0736 | 4406 | 283 | 4440 | 26 | 5 | 19.2308 | |
| ckim-vqsr | INDEL | * | map_l250_m1_e0 | het | 90.3553 | 93.6842 | 87.2549 | 97.7493 | 178 | 12 | 178 | 26 | 1 | 3.8462 | |
| ckim-vqsr | INDEL | * | map_l250_m2_e0 | het | 90.9931 | 93.8095 | 88.3408 | 97.8444 | 197 | 13 | 197 | 26 | 1 | 3.8462 | |
| ckim-vqsr | INDEL | * | map_l250_m2_e1 | het | 91.0345 | 93.8389 | 88.3929 | 97.8943 | 198 | 13 | 198 | 26 | 1 | 3.8462 | |
| ckim-vqsr | INDEL | * | segdup | het | 98.4343 | 98.6357 | 98.2337 | 96.7022 | 1446 | 20 | 1446 | 26 | 1 | 3.8462 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3574 | 99.5074 | 95.2984 | 84.1819 | 606 | 3 | 527 | 26 | 22 | 84.6154 | |
| ckim-vqsr | INDEL | D1_5 | HG002complexvar | het | 99.6767 | 99.4799 | 99.8743 | 56.3731 | 20657 | 108 | 20661 | 26 | 12 | 46.1538 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.4164 | 98.7673 | 96.1019 | 68.3886 | 641 | 8 | 641 | 26 | 26 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0480 | 100.0000 | 96.1708 | 73.2150 | 653 | 0 | 653 | 26 | 25 | 96.1538 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.1964 | 100.0000 | 89.0295 | 69.3402 | 211 | 0 | 211 | 26 | 25 | 96.1538 | |
| ckim-vqsr | SNP | ti | * | homalt | 99.0608 | 98.1423 | 99.9967 | 16.3042 | 788120 | 14918 | 788111 | 26 | 25 | 96.1538 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8916 | 97.7256 | 98.0583 | 70.5196 | 1332 | 31 | 1313 | 26 | 12 | 46.1538 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.3392 | 79.6642 | 94.2350 | 61.3539 | 427 | 109 | 425 | 26 | 23 | 88.4615 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.3636 | 98.0237 | 98.7058 | 69.2437 | 1984 | 40 | 1983 | 26 | 6 | 23.0769 | |
| egarrison-hhga | SNP | tv | map_l100_m0_e0 | het | 99.0740 | 98.5184 | 99.6359 | 68.9508 | 7115 | 107 | 7115 | 26 | 10 | 38.4615 | |
| egarrison-hhga | SNP | tv | map_l150_m1_e0 | * | 99.2818 | 98.8087 | 99.7594 | 72.5943 | 10782 | 130 | 10782 | 26 | 12 | 46.1538 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.5539 | 97.1103 | 98.0015 | 52.6392 | 1277 | 38 | 1275 | 26 | 18 | 69.2308 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8663 | 99.9256 | 99.8070 | 53.0009 | 13438 | 10 | 13443 | 26 | 25 | 96.1538 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.5818 | 90.2196 | 97.2043 | 65.2466 | 904 | 98 | 904 | 26 | 23 | 88.4615 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1784 | 99.0254 | 99.3318 | 68.0069 | 3861 | 38 | 3865 | 26 | 15 | 57.6923 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2427 | 99.0344 | 99.4519 | 67.0189 | 4718 | 46 | 4718 | 26 | 9 | 34.6154 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7174 | 99.8545 | 99.5807 | 55.4302 | 6175 | 9 | 6175 | 26 | 1 | 3.8462 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5813 | 99.8219 | 99.3418 | 57.3342 | 3924 | 7 | 3924 | 26 | 1 | 3.8462 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5642 | 99.5193 | 99.6091 | 77.5046 | 6625 | 32 | 6625 | 26 | 8 | 30.7692 | |
| astatham-gatk | SNP | * | map_l250_m0_e0 | het | 92.0747 | 86.7862 | 98.0495 | 94.4847 | 1307 | 199 | 1307 | 26 | 3 | 11.5385 | |
| astatham-gatk | SNP | tv | map_l150_m0_e0 | * | 93.7784 | 88.8356 | 99.3035 | 83.1642 | 3708 | 466 | 3707 | 26 | 6 | 23.0769 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.5041 | 98.4993 | 96.5287 | 73.6731 | 722 | 11 | 723 | 26 | 13 | 50.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 84.6939 | 74.8403 | 97.5355 | 31.8035 | 937 | 315 | 1029 | 26 | 23 | 88.4615 | |
| asubramanian-gatk | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 85.3107 | 0 | 0 | 0 | 26 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 88.3408 | 0 | 0 | 0 | 26 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 73.1959 | 0 | 0 | 0 | 26 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | HG002compoundhet | hetalt | 95.9105 | 93.3091 | 98.6612 | 26.6062 | 1799 | 129 | 1916 | 26 | 22 | 84.6154 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.6398 | 90.0513 | 97.5262 | 40.9551 | 878 | 97 | 1025 | 26 | 22 | 84.6154 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0122 | 93.7922 | 96.2644 | 75.4150 | 695 | 46 | 670 | 26 | 21 | 80.7692 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.5246 | 98.1818 | 80.5970 | 89.8638 | 108 | 2 | 108 | 26 | 0 | 0.0000 | |