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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11051-11100 / 86044 show all | |||||||||||||||
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5046 | 93.7269 | 99.4518 | 53.6591 | 3810 | 255 | 3810 | 21 | 4 | 19.0476 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e1 | * | 97.8230 | 98.9914 | 96.6819 | 73.9531 | 25028 | 255 | 25029 | 859 | 138 | 16.0652 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2458 | 98.7161 | 99.7811 | 57.1497 | 19607 | 255 | 19600 | 43 | 25 | 58.1395 | |
| ckim-gatk | INDEL | I1_5 | * | het | 99.5633 | 99.6774 | 99.4495 | 61.8943 | 78786 | 255 | 78766 | 436 | 147 | 33.7156 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.0994 | 97.6994 | 94.5510 | 57.2127 | 10829 | 255 | 10845 | 625 | 21 | 3.3600 | |
| jli-custom | INDEL | D1_5 | * | het | 99.7840 | 99.7088 | 99.8593 | 56.7542 | 87319 | 255 | 87313 | 123 | 65 | 52.8455 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.2341 | 94.6563 | 99.9563 | 27.5665 | 4517 | 255 | 4570 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3694 | 95.3108 | 99.5190 | 31.4561 | 5183 | 255 | 5172 | 25 | 25 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.9114 | 94.6773 | 99.2536 | 28.7725 | 4518 | 254 | 4521 | 34 | 34 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.3660 | 78.4928 | 98.5011 | 39.0737 | 927 | 254 | 920 | 14 | 13 | 92.8571 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.6588 | 95.6920 | 99.7081 | 53.9605 | 5642 | 254 | 5807 | 17 | 17 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.6588 | 95.6920 | 99.7081 | 53.9605 | 5642 | 254 | 5807 | 17 | 17 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 91.9469 | 85.2839 | 99.7392 | 69.0289 | 1472 | 254 | 1530 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2496 | 92.7964 | 99.9698 | 39.4554 | 3272 | 254 | 3312 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.2496 | 92.7964 | 99.9698 | 39.4554 | 3272 | 254 | 3312 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 55.8033 | 65.7682 | 48.4608 | 63.2482 | 488 | 254 | 488 | 519 | 513 | 98.8439 | |
| hfeng-pmm3 | SNP | * | map_l100_m1_e0 | het | 99.5486 | 99.4400 | 99.6575 | 64.8095 | 45105 | 254 | 45094 | 155 | 14 | 9.0323 | |
| hfeng-pmm3 | INDEL | * | * | homalt | 99.7023 | 99.7971 | 99.6077 | 55.0410 | 124918 | 254 | 124928 | 492 | 475 | 96.5447 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.7028 | 95.7181 | 99.7716 | 48.9962 | 5678 | 254 | 5678 | 13 | 10 | 76.9231 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.8847 | 89.4650 | 98.7637 | 56.1710 | 2157 | 254 | 2157 | 27 | 25 | 92.5926 | |
| ltrigg-rtg2 | INDEL | I1_5 | * | homalt | 99.7495 | 99.5797 | 99.9200 | 48.8836 | 60173 | 254 | 59955 | 48 | 38 | 79.1667 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.9357 | 90.3933 | 99.9588 | 34.5998 | 2390 | 254 | 2426 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2986 | 93.6245 | 97.0336 | 62.2347 | 3730 | 254 | 3729 | 114 | 103 | 90.3509 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4215 | 95.7225 | 99.1819 | 60.8518 | 5684 | 254 | 5698 | 47 | 44 | 93.6170 | |
| dgrover-gatk | SNP | * | map_l100_m0_e0 | * | 99.2175 | 99.2266 | 99.2084 | 71.3904 | 32587 | 254 | 32583 | 260 | 57 | 21.9231 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.1450 | 34.5361 | 98.5294 | 84.0936 | 134 | 254 | 134 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 39.0586 | 33.8542 | 46.1538 | 69.3790 | 130 | 254 | 132 | 154 | 146 | 94.8052 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | het | 97.6312 | 98.8022 | 96.4876 | 75.1408 | 20951 | 254 | 20960 | 763 | 67 | 8.7811 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 22.5610 | 0.0000 | 0.0000 | 74 | 254 | 0 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0075 | 95.3292 | 98.7460 | 27.5468 | 5184 | 254 | 5197 | 66 | 64 | 96.9697 | |
| bgallagher-sentieon | SNP | * | map_l125_m1_e0 | * | 99.2644 | 99.4418 | 99.0876 | 71.3529 | 45074 | 253 | 45068 | 415 | 70 | 16.8675 | |
| anovak-vg | INDEL | * | map_l150_m1_e0 | het | 70.8356 | 70.4094 | 71.2670 | 91.2380 | 602 | 253 | 630 | 254 | 71 | 27.9528 | |
| dgrover-gatk | INDEL | I1_5 | * | het | 99.6919 | 99.6799 | 99.7038 | 61.0342 | 78788 | 253 | 78770 | 234 | 135 | 57.6923 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.9555 | 98.7078 | 99.2044 | 76.2044 | 19326 | 253 | 19326 | 155 | 19 | 12.2581 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.9555 | 98.7078 | 99.2044 | 76.2044 | 19326 | 253 | 19326 | 155 | 19 | 12.2581 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4820 | 99.5452 | 99.4189 | 54.5520 | 55378 | 253 | 55428 | 324 | 26 | 8.0247 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.1550 | 90.0354 | 98.6695 | 35.2238 | 2286 | 253 | 2299 | 31 | 28 | 90.3226 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | het | 99.0340 | 98.4126 | 99.6632 | 64.7264 | 15685 | 253 | 15685 | 53 | 17 | 32.0755 | |
| qzeng-custom | INDEL | D1_5 | map_siren | het | 92.9621 | 88.8889 | 97.4265 | 85.9785 | 2024 | 253 | 2120 | 56 | 32 | 57.1429 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8414 | 95.9429 | 99.8165 | 68.2488 | 5983 | 253 | 5983 | 11 | 4 | 36.3636 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2263 | 98.5599 | 99.9019 | 64.0348 | 17315 | 253 | 17306 | 17 | 4 | 23.5294 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.9895 | 89.5064 | 98.9454 | 55.5533 | 2158 | 253 | 2158 | 23 | 21 | 91.3043 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6184 | 95.3476 | 100.0000 | 25.5017 | 5185 | 253 | 5197 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | map_l150_m2_e0 | het | 98.5424 | 98.7434 | 98.3423 | 77.9851 | 19880 | 253 | 19874 | 335 | 4 | 1.1940 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | het | 98.5420 | 98.7576 | 98.3273 | 78.0672 | 20110 | 253 | 20104 | 342 | 4 | 1.1696 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8505 | 98.2637 | 99.4444 | 73.4266 | 14318 | 253 | 14318 | 80 | 15 | 18.7500 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | * | 90.3615 | 92.9448 | 87.9179 | 87.2169 | 3333 | 253 | 3340 | 459 | 189 | 41.1765 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 71.6574 | 56.6038 | 97.6190 | 68.8312 | 330 | 253 | 328 | 8 | 8 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 77.0749 | 65.9030 | 92.8079 | 55.0487 | 489 | 253 | 942 | 73 | 69 | 94.5205 | |