PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18851-18900 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | * | map_l100_m2_e0 | het | 98.0384 | 98.4395 | 97.6405 | 86.1291 | 2271 | 36 | 2276 | 55 | 7 | 12.7273 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | * | 98.3031 | 98.4384 | 98.1682 | 84.3925 | 3530 | 56 | 3537 | 66 | 13 | 19.6970 | |
| ckim-gatk | INDEL | * | map_l100_m1_e0 | * | 97.0622 | 98.4384 | 95.7240 | 88.3725 | 3530 | 56 | 3537 | 158 | 20 | 12.6582 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.8453 | 98.4375 | 97.2603 | 65.7277 | 567 | 9 | 568 | 16 | 12 | 75.0000 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | het | 96.0763 | 98.4375 | 93.8258 | 79.0071 | 1701 | 27 | 1702 | 112 | 111 | 99.1071 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.3095 | 98.4375 | 98.1818 | 86.2989 | 378 | 6 | 378 | 7 | 2 | 28.5714 | |
| ckim-dragen | INDEL | D6_15 | map_l125_m1_e0 | het | 96.9231 | 98.4375 | 95.4545 | 92.5255 | 63 | 1 | 63 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | map_l150_m2_e0 | * | 95.7609 | 98.4375 | 93.2260 | 93.1205 | 1386 | 22 | 1390 | 101 | 9 | 8.9109 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9275 | 98.4375 | 97.4227 | 86.2069 | 378 | 6 | 378 | 10 | 2 | 20.0000 | |
| ckim-gatk | INDEL | D1_5 | HG002compoundhet | het | 96.2104 | 98.4375 | 94.0819 | 78.9081 | 1701 | 27 | 1701 | 107 | 105 | 98.1308 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7990 | 98.4375 | 95.2141 | 86.5241 | 378 | 6 | 378 | 19 | 2 | 10.5263 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e1 | het | 90.4455 | 98.4375 | 83.6538 | 91.9035 | 1386 | 22 | 1392 | 272 | 73 | 26.8382 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m1_e0 | het | 84.2017 | 98.4375 | 73.5632 | 93.0732 | 63 | 1 | 64 | 23 | 16 | 69.5652 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m1_e0 | homalt | 98.4375 | 98.4375 | 98.4375 | 84.1975 | 63 | 1 | 63 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m1_e0 | homalt | 99.2126 | 98.4375 | 100.0000 | 85.0000 | 63 | 1 | 63 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | het | 97.9886 | 98.4375 | 97.5439 | 89.1635 | 1386 | 22 | 1390 | 35 | 5 | 14.2857 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m0_e0 | het | 87.9923 | 98.4375 | 79.5511 | 91.6753 | 189 | 3 | 319 | 82 | 26 | 31.7073 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5918 | 98.4368 | 98.7473 | 52.7193 | 36020 | 572 | 35944 | 456 | 425 | 93.2018 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9876 | 98.4366 | 99.5448 | 47.2044 | 6611 | 105 | 6561 | 30 | 6 | 20.0000 | |
| raldana-dualsentieon | SNP | * | map_l125_m0_e0 | het | 98.3431 | 98.4365 | 98.2499 | 76.1833 | 12466 | 198 | 12463 | 222 | 2 | 0.9009 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0633 | 98.4363 | 99.6983 | 48.3242 | 2644 | 42 | 2644 | 8 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | homalt | 90.3108 | 98.4357 | 83.4250 | 51.0104 | 3335 | 53 | 3337 | 663 | 585 | 88.2353 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.9986 | 98.4353 | 99.5683 | 42.5145 | 692 | 11 | 692 | 3 | 2 | 66.6667 | |
| ckim-dragen | SNP | ti | map_l150_m0_e0 | * | 97.7765 | 98.4353 | 97.1264 | 80.6352 | 7738 | 123 | 7740 | 229 | 28 | 12.2271 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1404 | 98.4353 | 99.8557 | 31.3181 | 692 | 11 | 1384 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.9318 | 98.4353 | 86.2344 | 39.0430 | 692 | 11 | 758 | 121 | 116 | 95.8678 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1404 | 98.4353 | 99.8557 | 46.9778 | 692 | 11 | 692 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l150_m2_e1 | het | 99.0483 | 98.4349 | 99.6693 | 74.6001 | 7233 | 115 | 7233 | 24 | 9 | 37.5000 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.7673 | 98.4344 | 97.1092 | 52.3550 | 11254 | 179 | 11287 | 336 | 18 | 5.3571 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.7264 | 98.4342 | 99.0203 | 74.1270 | 8990 | 143 | 8995 | 89 | 19 | 21.3483 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.7264 | 98.4342 | 99.0203 | 74.1270 | 8990 | 143 | 8995 | 89 | 19 | 21.3483 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e1 | het | 99.1089 | 98.4335 | 99.7937 | 64.2644 | 30475 | 485 | 30477 | 63 | 24 | 38.0952 | |
| gduggal-snapfb | SNP | ti | map_siren | homalt | 99.1394 | 98.4334 | 99.8555 | 57.8682 | 37322 | 594 | 37322 | 54 | 29 | 53.7037 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9501 | 98.4334 | 99.4723 | 83.2597 | 377 | 6 | 377 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1689 | 98.4332 | 99.9157 | 48.1800 | 3581 | 57 | 3556 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | * | map_l100_m0_e0 | het | 97.4344 | 98.4329 | 96.4559 | 87.7838 | 1005 | 16 | 1007 | 37 | 4 | 10.8108 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | het | 92.9137 | 98.4304 | 87.9825 | 88.8885 | 5017 | 80 | 5015 | 685 | 60 | 8.7591 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | * | 98.8559 | 98.4299 | 99.2857 | 62.5855 | 75730 | 1208 | 75611 | 544 | 244 | 44.8529 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e0 | * | 98.2981 | 98.4295 | 98.1671 | 85.2737 | 3635 | 58 | 3642 | 68 | 13 | 19.1176 | |
| gduggal-snapplat | SNP | tv | segdup | * | 98.7367 | 98.4294 | 99.0458 | 94.5607 | 8398 | 134 | 8408 | 81 | 13 | 16.0494 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e0 | het | 98.2018 | 98.4293 | 97.9753 | 85.2570 | 752 | 12 | 871 | 18 | 5 | 27.7778 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | * | 99.0549 | 98.4292 | 99.6886 | 78.8145 | 11843 | 189 | 11843 | 37 | 16 | 43.2432 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e1 | * | 98.3131 | 98.4292 | 98.1972 | 85.3384 | 3697 | 59 | 3704 | 68 | 13 | 19.1176 | |
| ltrigg-rtg1 | SNP | * | map_l125_m1_e0 | * | 99.1092 | 98.4292 | 99.7987 | 62.1857 | 44615 | 712 | 44616 | 90 | 28 | 31.1111 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| rpoplin-dv42 | INDEL | * | map_l100_m0_e0 | homalt | 98.4283 | 98.4283 | 98.4283 | 84.0788 | 501 | 8 | 501 | 8 | 6 | 75.0000 | |
| raldana-dualsentieon | INDEL | * | map_l100_m0_e0 | homalt | 98.6220 | 98.4283 | 98.8166 | 82.4931 | 501 | 8 | 501 | 6 | 3 | 50.0000 | |
| egarrison-hhga | INDEL | * | map_l100_m0_e0 | homalt | 98.5251 | 98.4283 | 98.6220 | 83.5599 | 501 | 8 | 501 | 7 | 4 | 57.1429 | |