PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57501-57550 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | * | map_l250_m2_e1 | homalt | 97.8355 | 97.4138 | 98.2609 | 94.8546 | 113 | 3 | 113 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 68.0723 | 52.0737 | 98.2609 | 59.9303 | 113 | 104 | 113 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0614 | 93.9583 | 98.2609 | 81.1243 | 451 | 29 | 452 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | * | map_l250_m2_e0 | homalt | 98.2609 | 98.2609 | 98.2609 | 94.7513 | 113 | 2 | 113 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | * | map_l250_m2_e1 | homalt | 97.8355 | 97.4138 | 98.2609 | 94.9227 | 113 | 3 | 113 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0820 | 99.9158 | 98.2619 | 50.9937 | 4749 | 4 | 4749 | 84 | 83 | 98.8095 | |
| bgallagher-sentieon | SNP | tv | map_l125_m1_e0 | het | 98.8364 | 99.4173 | 98.2622 | 74.9493 | 10067 | 59 | 10065 | 178 | 22 | 12.3596 | |
| gduggal-bwafb | SNP | ti | map_l250_m1_e0 | * | 97.9068 | 97.5541 | 98.2622 | 89.4468 | 4467 | 112 | 4467 | 79 | 24 | 30.3797 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0069 | 97.7528 | 98.2624 | 85.8582 | 1131 | 26 | 1131 | 20 | 8 | 40.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | homalt | 94.5554 | 91.1175 | 98.2630 | 80.1576 | 318 | 31 | 396 | 7 | 7 | 100.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1585 | 96.0784 | 98.2630 | 83.6495 | 1470 | 60 | 1584 | 28 | 20 | 71.4286 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1585 | 96.0784 | 98.2630 | 83.6495 | 1470 | 60 | 1584 | 28 | 20 | 71.4286 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e0 | * | 98.0153 | 97.7687 | 98.2633 | 98.2577 | 2147 | 49 | 2150 | 38 | 14 | 36.8421 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| astatham-gatk | INDEL | I16_PLUS | * | * | 97.4870 | 96.7226 | 98.2635 | 70.9237 | 6168 | 209 | 6168 | 109 | 84 | 77.0642 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.7744 | 95.3296 | 98.2636 | 65.4439 | 2531 | 124 | 2490 | 44 | 33 | 75.0000 | |
| jlack-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 98.0936 | 97.9239 | 98.2639 | 75.8186 | 283 | 6 | 283 | 5 | 4 | 80.0000 | |
| ckim-vqsr | SNP | tv | map_l125_m0_e0 | * | 63.5371 | 46.9462 | 98.2639 | 92.6176 | 3113 | 3518 | 3113 | 55 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e0 | het | 98.3596 | 98.4551 | 98.2644 | 79.4915 | 12682 | 199 | 12682 | 224 | 63 | 28.1250 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.1512 | 96.0630 | 98.2644 | 67.2067 | 732 | 30 | 736 | 13 | 8 | 61.5385 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | homalt | 98.8916 | 99.5266 | 98.2646 | 31.2248 | 7359 | 35 | 7361 | 130 | 119 | 91.5385 | |
| gduggal-bwafb | INDEL | * | map_l150_m1_e0 | homalt | 98.1582 | 98.0519 | 98.2646 | 89.3558 | 453 | 9 | 453 | 8 | 6 | 75.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m2_e1 | * | 98.1943 | 98.1237 | 98.2651 | 88.7746 | 1412 | 27 | 1416 | 25 | 6 | 24.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 91.8919 | 86.2944 | 98.2659 | 34.2205 | 170 | 27 | 170 | 3 | 2 | 66.6667 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m1_e0 | het | 81.7401 | 69.9725 | 98.2659 | 88.4897 | 508 | 218 | 510 | 9 | 3 | 33.3333 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 76.2512 | 62.2951 | 98.2659 | 87.5405 | 342 | 207 | 340 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | I6_15 | * | * | 97.3971 | 96.5435 | 98.2659 | 53.3907 | 23965 | 858 | 23970 | 423 | 364 | 86.0520 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8091 | 97.3562 | 98.2662 | 76.6111 | 2099 | 57 | 2097 | 37 | 20 | 54.0541 | |
| mlin-fermikit | SNP | ti | HG002complexvar | homalt | 98.3813 | 98.4958 | 98.2669 | 18.8239 | 190554 | 2910 | 190572 | 3361 | 3261 | 97.0247 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e1 | het | 98.3690 | 98.4710 | 98.2671 | 79.5893 | 12816 | 199 | 12816 | 226 | 64 | 28.3186 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8792 | 99.4987 | 98.2673 | 65.6463 | 397 | 2 | 397 | 7 | 5 | 71.4286 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8792 | 99.4987 | 98.2673 | 65.6463 | 397 | 2 | 397 | 7 | 5 | 71.4286 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8792 | 99.4987 | 98.2673 | 65.6463 | 397 | 2 | 397 | 7 | 5 | 71.4286 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 68.0749 | 52.0749 | 98.2675 | 53.6013 | 1418 | 1305 | 1418 | 25 | 24 | 96.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | * | 98.0795 | 97.8917 | 98.2680 | 78.2094 | 4086 | 88 | 4085 | 72 | 45 | 62.5000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | homalt | 98.9107 | 99.5614 | 98.2684 | 87.7971 | 227 | 1 | 227 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | * | map_l100_m1_e0 | * | 96.2346 | 94.2833 | 98.2684 | 83.2956 | 3381 | 205 | 3405 | 60 | 20 | 33.3333 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0327 | 99.8086 | 98.2688 | 63.7648 | 8344 | 16 | 8344 | 147 | 145 | 98.6395 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0327 | 99.8086 | 98.2688 | 63.7648 | 8344 | 16 | 8344 | 147 | 145 | 98.6395 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8517 | 99.4416 | 98.2688 | 76.2612 | 9082 | 51 | 9082 | 160 | 11 | 6.8750 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8517 | 99.4416 | 98.2688 | 76.2612 | 9082 | 51 | 9082 | 160 | 11 | 6.8750 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3282 | 96.4052 | 98.2690 | 85.0309 | 1475 | 55 | 1476 | 26 | 18 | 69.2308 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3282 | 96.4052 | 98.2690 | 85.0309 | 1475 | 55 | 1476 | 26 | 18 | 69.2308 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e0 | * | 98.3638 | 98.4586 | 98.2692 | 90.4535 | 511 | 8 | 511 | 9 | 2 | 22.2222 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0447 | 99.8325 | 98.2692 | 63.7593 | 8346 | 14 | 8346 | 147 | 145 | 98.6395 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0447 | 99.8325 | 98.2692 | 63.7593 | 8346 | 14 | 8346 | 147 | 145 | 98.6395 | |
| ckim-gatk | SNP | * | map_l100_m1_e0 | * | 89.2398 | 81.7300 | 98.2693 | 78.3708 | 59175 | 13228 | 59164 | 1042 | 84 | 8.0614 | |