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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76201-76250 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 49.2182 | 39.3273 | 65.7559 | 77.6192 | 304 | 469 | 361 | 188 | 52 | 27.6596 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.7166 | 95.9906 | 95.4442 | 52.1613 | 2442 | 102 | 2514 | 120 | 52 | 43.3333 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 68.6189 | 80.5430 | 59.7701 | 87.2900 | 178 | 43 | 208 | 140 | 52 | 37.1429 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.9681 | 98.4772 | 97.4643 | 37.2197 | 2716 | 42 | 2729 | 71 | 52 | 73.2394 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | hetalt | 96.0304 | 92.5536 | 99.7785 | 50.2300 | 23305 | 1875 | 23427 | 52 | 52 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2548 | 94.9731 | 99.6489 | 58.8526 | 14642 | 775 | 14759 | 52 | 52 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.3763 | 96.3910 | 88.6827 | 87.4183 | 641 | 24 | 478 | 61 | 53 | 86.8852 | |
| anovak-vg | INDEL | * | map_l150_m0_e0 | homalt | 74.0771 | 78.6585 | 70.0000 | 91.3793 | 129 | 35 | 133 | 57 | 53 | 92.9825 | |
| anovak-vg | SNP | ti | map_l125_m2_e1 | homalt | 90.0123 | 82.2569 | 99.3822 | 67.2869 | 9425 | 2033 | 9330 | 58 | 53 | 91.3793 | |
| anovak-vg | SNP | tv | map_l250_m0_e0 | * | 73.9996 | 77.6471 | 70.6794 | 95.9856 | 594 | 171 | 593 | 246 | 53 | 21.5447 | |
| bgallagher-sentieon | SNP | ti | HG002complexvar | * | 99.9558 | 99.9337 | 99.9780 | 17.4939 | 508099 | 337 | 508035 | 112 | 53 | 47.3214 | |
| bgallagher-sentieon | SNP | tv | * | het | 99.8318 | 99.9594 | 99.7045 | 23.0898 | 591456 | 240 | 591385 | 1753 | 53 | 3.0234 | |
| asubramanian-gatk | INDEL | I6_15 | * | het | 98.1049 | 97.0796 | 99.1521 | 59.9730 | 9740 | 293 | 9706 | 83 | 53 | 63.8554 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.1172 | 68.0571 | 94.4698 | 74.1440 | 1860 | 873 | 1862 | 109 | 53 | 48.6239 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 80.1285 | 70.1493 | 93.4180 | 55.0363 | 423 | 180 | 809 | 57 | 53 | 92.9825 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.2224 | 95.1576 | 99.3788 | 72.1373 | 16153 | 822 | 16158 | 101 | 53 | 52.4752 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.2224 | 95.1576 | 99.3788 | 72.1373 | 16153 | 822 | 16158 | 101 | 53 | 52.4752 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 71.2981 | 57.7309 | 93.2011 | 73.4101 | 2300 | 1684 | 2303 | 168 | 53 | 31.5476 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.2975 | 70.7032 | 98.4402 | 61.5346 | 8396 | 3479 | 8394 | 133 | 53 | 39.8496 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | homalt | 88.8329 | 83.9179 | 94.3595 | 65.4443 | 981 | 188 | 987 | 59 | 53 | 89.8305 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002compoundhet | homalt | 37.8738 | 75.0000 | 25.3333 | 81.1558 | 18 | 6 | 19 | 56 | 53 | 94.6429 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | * | 96.5889 | 95.5575 | 97.6430 | 32.3191 | 2237 | 104 | 2237 | 54 | 53 | 98.1481 | |
| jli-custom | INDEL | D6_15 | HG002complexvar | * | 98.1282 | 97.3972 | 98.8702 | 56.5015 | 5164 | 138 | 5163 | 59 | 53 | 89.8305 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7999 | 98.6779 | 98.9222 | 68.1958 | 5523 | 74 | 5507 | 60 | 53 | 88.3333 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | * | homalt | 94.3162 | 92.3767 | 96.3390 | 45.5318 | 1442 | 119 | 1421 | 54 | 53 | 98.1481 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.0380 | 36.1702 | 53.1250 | 73.1092 | 68 | 120 | 68 | 60 | 53 | 88.3333 | |
| jpowers-varprowl | INDEL | I6_15 | map_siren | * | 66.5799 | 58.6885 | 76.9231 | 81.1897 | 179 | 126 | 180 | 54 | 53 | 98.1481 | |
| jpowers-varprowl | SNP | tv | map_l150_m0_e0 | het | 93.9990 | 95.0405 | 92.9800 | 87.0071 | 2702 | 141 | 2702 | 204 | 53 | 25.9804 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | hetalt | 95.3319 | 91.2708 | 99.7711 | 50.5352 | 22982 | 2198 | 23098 | 53 | 53 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | het | 84.9309 | 97.1154 | 75.4630 | 84.4268 | 202 | 6 | 163 | 53 | 53 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | * | homalt | 79.0390 | 68.3536 | 93.6842 | 50.1966 | 1067 | 494 | 1068 | 72 | 53 | 73.6111 | |
| ckim-isaac | INDEL | I16_PLUS | HG002compoundhet | homalt | 3.4483 | 33.3333 | 1.8182 | 61.5385 | 1 | 2 | 1 | 54 | 53 | 98.1481 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.8320 | 96.0887 | 99.6397 | 60.4528 | 14814 | 603 | 14932 | 54 | 53 | 98.1481 | |
| dgrover-gatk | INDEL | I6_15 | * | het | 99.0704 | 98.9435 | 99.1977 | 59.7099 | 9927 | 106 | 9891 | 80 | 53 | 66.2500 | |
| dgrover-gatk | SNP | * | HG002complexvar | het | 99.9434 | 99.9156 | 99.9712 | 18.5452 | 465104 | 393 | 464974 | 134 | 53 | 39.5522 | |
| egarrison-hhga | SNP | * | map_siren | het | 99.5365 | 99.2384 | 99.8364 | 54.0342 | 90298 | 693 | 90299 | 148 | 53 | 35.8108 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3239 | 99.0379 | 99.6116 | 52.2441 | 27690 | 269 | 27695 | 108 | 53 | 49.0741 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 80.0000 | 94.8570 | 0 | 0 | 256 | 64 | 53 | 82.8125 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| ltrigg-rtg2 | SNP | * | segdup | * | 99.1371 | 99.6722 | 98.6078 | 87.3153 | 27975 | 92 | 27977 | 395 | 53 | 13.4177 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | het | 83.3456 | 79.6421 | 87.4105 | 89.3842 | 1780 | 455 | 2319 | 334 | 53 | 15.8683 | |
| mlin-fermikit | INDEL | D6_15 | map_siren | * | 81.1872 | 77.0138 | 85.8388 | 82.0071 | 392 | 117 | 394 | 65 | 53 | 81.5385 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.3080 | 97.8404 | 94.8229 | 62.8918 | 1042 | 23 | 1044 | 57 | 53 | 92.9825 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | homalt | 94.3279 | 97.3482 | 91.4894 | 56.3918 | 1138 | 31 | 1161 | 108 | 53 | 49.0741 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 77.1546 | 63.0485 | 99.3919 | 33.0569 | 8678 | 5086 | 8826 | 54 | 53 | 98.1481 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3852 | 95.7925 | 99.0319 | 61.6504 | 6056 | 266 | 6342 | 62 | 53 | 85.4839 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3852 | 95.7925 | 99.0319 | 61.6504 | 6056 | 266 | 6342 | 62 | 53 | 85.4839 | |
| ciseli-custom | INDEL | * | map_l150_m1_e0 | homalt | 63.4966 | 53.8961 | 77.2586 | 91.1399 | 249 | 213 | 248 | 73 | 53 | 72.6027 | |