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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56651-56700 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | map_siren | het | 84.8820 | 91.5981 | 79.0836 | 63.1144 | 83346 | 7645 | 82394 | 21792 | 4974 | 22.8249 | |
| qzeng-custom | SNP | ti | * | * | 99.5194 | 99.2515 | 99.7887 | 20.8361 | 2069907 | 15611 | 2063126 | 4368 | 997 | 22.8251 | |
| cchapple-custom | SNP | * | map_l100_m0_e0 | het | 95.9513 | 97.0667 | 94.8612 | 75.7604 | 20583 | 622 | 20601 | 1116 | 255 | 22.8495 | |
| anovak-vg | SNP | tv | map_l250_m1_e0 | * | 73.3649 | 80.4307 | 67.4404 | 91.1516 | 2129 | 518 | 2121 | 1024 | 234 | 22.8516 | |
| cchapple-custom | SNP | ti | map_siren | het | 98.0329 | 98.5813 | 97.4906 | 61.4640 | 61497 | 885 | 61538 | 1584 | 362 | 22.8535 | |
| ghariani-varprowl | SNP | ti | HG002complexvar | * | 99.5322 | 99.7412 | 99.3241 | 19.7678 | 507113 | 1316 | 507283 | 3452 | 789 | 22.8563 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.7973 | 53.7975 | 91.6468 | 94.9895 | 765 | 657 | 768 | 70 | 16 | 22.8571 | |
| gduggal-bwafb | INDEL | * | map_l150_m2_e1 | * | 96.4212 | 95.3440 | 97.5230 | 89.5147 | 1372 | 67 | 1378 | 35 | 8 | 22.8571 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e1 | * | 97.4531 | 96.7509 | 98.1656 | 84.4194 | 1876 | 63 | 1873 | 35 | 8 | 22.8571 | |
| hfeng-pmm1 | SNP | ti | map_l250_m1_e0 | het | 98.6671 | 98.5175 | 98.8172 | 88.8014 | 2924 | 44 | 2924 | 35 | 8 | 22.8571 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e0 | het | 98.7844 | 98.6478 | 98.9214 | 88.9993 | 3210 | 44 | 3210 | 35 | 8 | 22.8571 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e1 | het | 98.7703 | 98.6056 | 98.9355 | 89.0938 | 3253 | 46 | 3253 | 35 | 8 | 22.8571 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 80.8643 | 90.1961 | 73.2824 | 95.0076 | 92 | 10 | 96 | 35 | 8 | 22.8571 | |
| cchapple-custom | SNP | * | map_l250_m2_e0 | het | 95.2059 | 95.7451 | 94.6728 | 91.6166 | 4973 | 221 | 4976 | 280 | 64 | 22.8571 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | * | 98.3163 | 98.2914 | 98.3412 | 88.3670 | 2071 | 36 | 2075 | 35 | 8 | 22.8571 | |
| jli-custom | SNP | tv | map_l100_m1_e0 | het | 99.2078 | 99.0984 | 99.3174 | 64.0498 | 15278 | 139 | 15277 | 105 | 24 | 22.8571 | |
| cchapple-custom | SNP | * | map_l125_m1_e0 | het | 96.0557 | 97.2739 | 94.8677 | 77.0814 | 27618 | 774 | 27653 | 1496 | 342 | 22.8610 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e0 | het | 98.4559 | 98.7380 | 98.1754 | 76.1231 | 28948 | 370 | 28948 | 538 | 123 | 22.8625 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e1 | het | 98.4726 | 98.7517 | 98.1951 | 76.1869 | 29270 | 370 | 29270 | 538 | 123 | 22.8625 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 46.1868 | 42.3753 | 50.7516 | 72.8442 | 6194 | 8423 | 7833 | 7601 | 1738 | 22.8654 | |
| dgrover-gatk | SNP | * | map_l150_m1_e0 | * | 99.1521 | 99.1473 | 99.1569 | 77.1188 | 30348 | 261 | 30342 | 258 | 59 | 22.8682 | |
| gduggal-bwafb | SNP | ti | map_l100_m1_e0 | het | 98.8099 | 98.9880 | 98.6324 | 68.7421 | 29639 | 303 | 29641 | 411 | 94 | 22.8710 | |
| anovak-vg | SNP | * | map_l150_m1_e0 | * | 79.3251 | 85.8375 | 73.7311 | 78.7422 | 26274 | 4335 | 25974 | 9254 | 2118 | 22.8874 | |
| bgallagher-sentieon | SNP | ti | map_l250_m2_e0 | * | 98.6664 | 98.9816 | 98.3532 | 89.5470 | 4957 | 51 | 4957 | 83 | 19 | 22.8916 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 21.6981 | 90.8066 | 0 | 1 | 23 | 83 | 19 | 22.8916 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e0 | * | 99.2429 | 98.6642 | 99.8285 | 55.8705 | 48307 | 654 | 48309 | 83 | 19 | 22.8916 | |
| anovak-vg | SNP | * | map_l250_m2_e1 | het | 71.9604 | 86.4932 | 61.6087 | 92.1600 | 4553 | 711 | 4519 | 2816 | 645 | 22.9048 | |
| cchapple-custom | SNP | * | map_l125_m1_e0 | * | 96.8884 | 97.0680 | 96.7095 | 73.1758 | 43998 | 1329 | 43998 | 1497 | 343 | 22.9125 | |
| dgrover-gatk | SNP | tv | map_l250_m1_e0 | * | 98.0711 | 97.9600 | 98.1825 | 89.6431 | 2593 | 54 | 2593 | 48 | 11 | 22.9167 | |
| cchapple-custom | SNP | * | map_l100_m0_e0 | * | 96.7025 | 96.7997 | 96.6055 | 71.5936 | 31790 | 1051 | 31789 | 1117 | 256 | 22.9185 | |
| dgrover-gatk | SNP | * | map_l250_m2_e0 | het | 98.1270 | 98.3442 | 97.9107 | 91.4879 | 5108 | 86 | 5108 | 109 | 25 | 22.9358 | |
| ckim-isaac | INDEL | D16_PLUS | HG002complexvar | het | 76.6298 | 73.5321 | 80.0000 | 57.0120 | 814 | 293 | 488 | 122 | 28 | 22.9508 | |
| gduggal-bwafb | SNP | tv | map_l250_m1_e0 | * | 97.3075 | 96.9399 | 97.6780 | 89.1719 | 2566 | 81 | 2566 | 61 | 14 | 22.9508 | |
| qzeng-custom | SNP | * | HG002compoundhet | het | 97.8777 | 97.6372 | 98.1193 | 49.7459 | 13843 | 335 | 16591 | 318 | 73 | 22.9560 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e0 | * | 98.3285 | 98.6461 | 98.0129 | 85.9953 | 3643 | 50 | 3650 | 74 | 17 | 22.9730 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e1 | * | 98.3429 | 98.6422 | 98.0454 | 86.0496 | 3705 | 51 | 3712 | 74 | 17 | 22.9730 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | het | 83.7221 | 81.0345 | 86.5942 | 94.7283 | 423 | 99 | 478 | 74 | 17 | 22.9730 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m1_e0 | het | 85.0662 | 81.8182 | 88.5827 | 93.2602 | 594 | 132 | 675 | 87 | 20 | 22.9885 | |
| gduggal-bwafb | SNP | tv | map_l150_m0_e0 | het | 97.3551 | 97.7489 | 96.9644 | 82.8486 | 2779 | 64 | 2779 | 87 | 20 | 22.9885 | |
| anovak-vg | SNP | * | map_l250_m2_e0 | het | 71.8617 | 86.4074 | 61.5077 | 92.1188 | 4488 | 706 | 4455 | 2788 | 641 | 22.9914 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.4159 | 66.8404 | 97.8199 | 66.1276 | 4489 | 2227 | 4487 | 100 | 23 | 23.0000 | |
| anovak-vg | SNP | tv | map_l150_m1_e0 | het | 75.5604 | 90.6277 | 64.7889 | 80.5286 | 6295 | 651 | 6291 | 3419 | 787 | 23.0184 | |
| ltrigg-rtg1 | SNP | * | map_l100_m2_e0 | * | 99.3059 | 98.8413 | 99.7748 | 59.2762 | 73107 | 857 | 73104 | 165 | 38 | 23.0303 | |
| gduggal-snapvard | INDEL | * | map_l250_m2_e1 | het | 72.6943 | 94.7867 | 58.9537 | 96.0937 | 200 | 11 | 293 | 204 | 47 | 23.0392 | |
| cchapple-custom | SNP | * | map_l250_m2_e1 | het | 95.2117 | 95.7257 | 94.7032 | 91.6862 | 5039 | 225 | 5042 | 282 | 65 | 23.0496 | |
| jpowers-varprowl | SNP | tv | map_l100_m0_e0 | het | 95.8224 | 96.2337 | 95.4146 | 78.9693 | 6950 | 272 | 6950 | 334 | 77 | 23.0539 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.2110 | 98.7855 | 99.6402 | 72.5769 | 3579 | 44 | 3600 | 13 | 3 | 23.0769 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m1_e0 | * | 96.5147 | 94.1704 | 98.9788 | 84.7782 | 1260 | 78 | 1260 | 13 | 3 | 23.0769 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m2_e0 | * | 96.6549 | 94.3892 | 99.0320 | 86.0395 | 1329 | 79 | 1330 | 13 | 3 | 23.0769 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m2_e1 | * | 96.6561 | 94.3711 | 99.0545 | 86.0293 | 1358 | 81 | 1362 | 13 | 3 | 23.0769 | |