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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26151-26200 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | SNP | * | map_l250_m1_e0 | homalt | 99.4730 | 99.6346 | 99.3120 | 87.0152 | 2454 | 9 | 2454 | 17 | 6 | 35.2941 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e0 | homalt | 99.4980 | 99.6277 | 99.3687 | 87.8966 | 2676 | 10 | 2676 | 17 | 6 | 35.2941 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e1 | homalt | 99.5040 | 99.6321 | 99.3761 | 87.9531 | 2708 | 10 | 2708 | 17 | 6 | 35.2941 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | homalt | 99.4527 | 99.5940 | 99.3117 | 86.9423 | 2453 | 10 | 2453 | 17 | 6 | 35.2941 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | homalt | 99.4794 | 99.5905 | 99.3685 | 87.8350 | 2675 | 11 | 2675 | 17 | 6 | 35.2941 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | homalt | 99.4855 | 99.5953 | 99.3759 | 87.8906 | 2707 | 11 | 2707 | 17 | 6 | 35.2941 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | het | 95.0637 | 93.8972 | 96.2596 | 94.5783 | 877 | 57 | 875 | 34 | 12 | 35.2941 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 39.2857 | 92.8021 | 0 | 0 | 11 | 17 | 6 | 35.2941 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | het | 66.0619 | 55.5447 | 81.4921 | 84.3450 | 2274 | 1820 | 2272 | 516 | 182 | 35.2713 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.6456 | 97.0042 | 90.5118 | 51.1256 | 2299 | 71 | 2299 | 241 | 85 | 35.2697 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | het | 95.7486 | 95.1228 | 96.3826 | 81.5656 | 7860 | 403 | 7860 | 295 | 104 | 35.2542 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 77.9097 | 64.7065 | 97.8826 | 70.2472 | 12852 | 7010 | 12851 | 278 | 98 | 35.2518 | |
| gduggal-snapfb | SNP | * | map_l250_m0_e0 | * | 93.7882 | 93.3489 | 94.2317 | 93.9033 | 1993 | 142 | 1993 | 122 | 43 | 35.2459 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | * | 99.5035 | 99.0473 | 99.9639 | 22.5835 | 243807 | 2345 | 243715 | 88 | 31 | 35.2273 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.5107 | 95.4217 | 93.6170 | 89.0315 | 792 | 38 | 792 | 54 | 19 | 35.1852 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.2521 | 92.5164 | 80.7824 | 44.1095 | 2114 | 171 | 2127 | 506 | 178 | 35.1779 | |
| ndellapenna-hhga | SNP | * | segdup | * | 99.5371 | 99.5903 | 99.4839 | 89.2221 | 27952 | 115 | 27952 | 145 | 51 | 35.1724 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m1_e0 | het | 93.2578 | 98.3278 | 88.6850 | 92.8163 | 294 | 5 | 290 | 37 | 13 | 35.1351 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e0 | het | 93.4675 | 98.3819 | 89.0208 | 93.4867 | 304 | 5 | 300 | 37 | 13 | 35.1351 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1571 | 98.6358 | 99.6839 | 46.3252 | 11713 | 162 | 11670 | 37 | 13 | 35.1351 | |
| ghariani-varprowl | INDEL | D1_5 | map_siren | * | 93.0194 | 95.1544 | 90.9781 | 84.3263 | 3358 | 171 | 3358 | 333 | 117 | 35.1351 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.9747 | 88.1319 | 98.3807 | 75.7191 | 10181 | 1371 | 10207 | 168 | 59 | 35.1190 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.9747 | 88.1319 | 98.3807 | 75.7191 | 10181 | 1371 | 10207 | 168 | 59 | 35.1190 | |
| jli-custom | SNP | ti | map_l125_m2_e0 | * | 99.3639 | 99.1176 | 99.6114 | 68.7298 | 29991 | 267 | 29989 | 117 | 41 | 35.0427 | |
| jli-custom | SNP | ti | map_l125_m2_e1 | * | 99.3704 | 99.1266 | 99.6153 | 68.7864 | 30302 | 267 | 30300 | 117 | 41 | 35.0427 | |
| jpowers-varprowl | SNP | ti | map_l150_m1_e0 | het | 96.3303 | 95.7074 | 96.9615 | 80.9022 | 11839 | 531 | 11839 | 371 | 130 | 35.0404 | |
| gduggal-snapfb | SNP | ti | map_siren | * | 98.5881 | 98.6618 | 98.5145 | 58.3905 | 99012 | 1343 | 99014 | 1493 | 523 | 35.0301 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 94.1717 | 93.7669 | 94.5799 | 81.8940 | 346 | 23 | 349 | 20 | 7 | 35.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m1_e0 | * | 93.8317 | 95.4545 | 92.2631 | 90.7131 | 483 | 23 | 477 | 40 | 14 | 35.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e0 | * | 93.9848 | 95.5684 | 92.4528 | 91.6272 | 496 | 23 | 490 | 40 | 14 | 35.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_siren | * | 87.3512 | 77.9824 | 99.2785 | 89.5187 | 2752 | 777 | 2752 | 20 | 7 | 35.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 73.3373 | 87.8049 | 62.9630 | 84.4380 | 36 | 5 | 34 | 20 | 7 | 35.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| astatham-gatk | SNP | * | map_l150_m0_e0 | * | 93.4108 | 88.0735 | 99.4368 | 82.7630 | 10597 | 1435 | 10594 | 60 | 21 | 35.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.4691 | 99.4211 | 99.5171 | 82.2582 | 4122 | 24 | 4122 | 20 | 7 | 35.0000 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 13.0435 | 94.6009 | 0 | 0 | 3 | 20 | 7 | 35.0000 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9370 | 98.8636 | 99.0104 | 68.9077 | 2001 | 23 | 2001 | 20 | 7 | 35.0000 | |
| ciseli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 25.9259 | 96.9799 | 0 | 0 | 7 | 20 | 7 | 35.0000 | |
| ciseli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 25.9259 | 96.9799 | 0 | 0 | 7 | 20 | 7 | 35.0000 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 16.6667 | 93.6609 | 0 | 0 | 20 | 100 | 35 | 35.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4987 | 99.1235 | 99.8768 | 54.4784 | 16285 | 144 | 16208 | 20 | 7 | 35.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | het | 99.7293 | 99.5044 | 99.9553 | 17.6005 | 313206 | 1560 | 313156 | 140 | 49 | 35.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.9735 | 92.2961 | 93.6609 | 72.5054 | 611 | 51 | 591 | 40 | 14 | 35.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2384 | 97.7540 | 98.7277 | 67.1771 | 4657 | 107 | 4656 | 60 | 21 | 35.0000 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | * | 98.3164 | 98.1315 | 98.5019 | 88.5230 | 1313 | 25 | 1315 | 20 | 7 | 35.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | * | 98.3640 | 98.1534 | 98.5755 | 89.3077 | 1382 | 26 | 1384 | 20 | 7 | 35.0000 | |
| gduggal-bwafb | SNP | * | HG002complexvar | het | 99.7664 | 99.7319 | 99.8010 | 20.1804 | 464252 | 1248 | 464384 | 926 | 324 | 34.9892 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 67.2347 | 77.6447 | 59.2860 | 62.9451 | 4345 | 1251 | 4683 | 3216 | 1125 | 34.9813 | |