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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60551-60600 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | het | 81.5245 | 69.3666 | 98.8501 | 88.6777 | 13240 | 5847 | 13238 | 154 | 3 | 1.9481 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | * | 98.5375 | 98.2270 | 98.8501 | 88.3448 | 4986 | 90 | 4986 | 58 | 38 | 65.5172 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l150_m0_e0 | * | 98.2857 | 97.7273 | 98.8506 | 91.7103 | 172 | 4 | 172 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8506 | 98.8506 | 98.8506 | 81.8750 | 86 | 1 | 86 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 36.0294 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | map_l250_m0_e0 | homalt | 61.4286 | 44.5596 | 98.8506 | 96.4620 | 86 | 107 | 86 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_siren | homalt | 98.9302 | 99.0099 | 98.8506 | 78.8211 | 1200 | 12 | 1204 | 14 | 8 | 57.1429 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m1_e0 | * | 86.6896 | 77.1930 | 98.8506 | 81.4894 | 88 | 26 | 86 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | map_l100_m1_e0 | homalt | 98.5277 | 98.2070 | 98.8506 | 84.0137 | 1205 | 22 | 1204 | 14 | 12 | 85.7143 | |
| cchapple-custom | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 40.4110 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 62.8205 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 43.8710 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 62.8205 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.6616 | 98.4733 | 98.8506 | 65.3846 | 516 | 8 | 516 | 6 | 5 | 83.3333 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e1 | * | 78.2708 | 64.7834 | 98.8506 | 91.4496 | 344 | 187 | 344 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0342 | 97.2312 | 98.8506 | 67.1730 | 16505 | 470 | 16513 | 192 | 4 | 2.0833 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0342 | 97.2312 | 98.8506 | 67.1730 | 16505 | 470 | 16513 | 192 | 4 | 2.0833 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.2503 | 95.7009 | 98.8506 | 74.0943 | 512 | 23 | 516 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4367 | 96.0623 | 98.8510 | 34.0969 | 19785 | 811 | 20562 | 239 | 223 | 93.3054 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e1 | het | 99.0257 | 99.2009 | 98.8512 | 79.6610 | 12911 | 104 | 12907 | 150 | 13 | 8.6667 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8029 | 98.7545 | 98.8513 | 71.4513 | 6026 | 76 | 6024 | 70 | 13 | 18.5714 | |
| ltrigg-rtg1 | INDEL | * | map_siren | het | 97.4658 | 96.1180 | 98.8519 | 76.2761 | 4333 | 175 | 4305 | 50 | 3 | 6.0000 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e0 | * | 98.7457 | 98.6398 | 98.8519 | 77.9268 | 20233 | 279 | 20233 | 235 | 69 | 29.3617 | |
| gduggal-bwaplat | INDEL | * | map_siren | het | 87.4010 | 78.3274 | 98.8522 | 90.8215 | 3531 | 977 | 3531 | 41 | 15 | 36.5854 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5033 | 96.1905 | 98.8525 | 65.9408 | 606 | 24 | 603 | 7 | 6 | 85.7143 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.3276 | 99.8069 | 98.8528 | 81.3813 | 517 | 1 | 517 | 6 | 4 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | segdup | het | 98.3082 | 97.7695 | 98.8528 | 93.0710 | 526 | 12 | 517 | 6 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | * | homalt | 98.8702 | 98.8876 | 98.8528 | 20.1908 | 372928 | 4195 | 372923 | 4328 | 4101 | 94.7551 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 98.8260 | 98.7990 | 98.8530 | 85.3498 | 1892 | 23 | 1896 | 22 | 5 | 22.7273 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4111 | 97.9730 | 98.8532 | 73.6237 | 435 | 9 | 431 | 5 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | ti | map_l150_m2_e1 | * | 98.7513 | 98.6488 | 98.8540 | 78.0171 | 20443 | 280 | 20443 | 237 | 70 | 29.5359 | |
| jlack-gatk | SNP | * | map_l250_m0_e0 | homalt | 97.4194 | 96.0254 | 98.8543 | 92.0297 | 604 | 25 | 604 | 7 | 4 | 57.1429 | |
| hfeng-pmm2 | INDEL | * | map_siren | * | 98.8132 | 98.7719 | 98.8544 | 81.7102 | 7319 | 91 | 7335 | 85 | 17 | 20.0000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e0 | het | 99.0233 | 99.1926 | 98.8546 | 79.5912 | 12777 | 104 | 12773 | 148 | 13 | 8.7838 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 81.7312 | 69.6640 | 98.8549 | 64.9750 | 4230 | 1842 | 4230 | 49 | 43 | 87.7551 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6110 | 96.3981 | 98.8550 | 60.6748 | 12070 | 451 | 11914 | 138 | 125 | 90.5797 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.4242 | 100.0000 | 98.8550 | 79.6188 | 518 | 0 | 518 | 6 | 4 | 66.6667 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.1111 | 97.3783 | 98.8550 | 62.7841 | 260 | 7 | 259 | 3 | 1 | 33.3333 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3508 | 99.8517 | 98.8550 | 44.7482 | 6734 | 10 | 6734 | 78 | 1 | 1.2821 | |
| jli-custom | SNP | * | map_l250_m1_e0 | het | 97.5495 | 96.2776 | 98.8555 | 86.3033 | 4578 | 177 | 4578 | 53 | 23 | 43.3962 | |
| gduggal-bwafb | SNP | ti | map_l150_m1_e0 | * | 98.7276 | 98.5998 | 98.8556 | 76.3349 | 19436 | 276 | 19436 | 225 | 69 | 30.6667 | |
| cchapple-custom | INDEL | I16_PLUS | HG002compoundhet | het | 93.8692 | 89.3617 | 98.8556 | 50.9675 | 42 | 5 | 2505 | 29 | 26 | 89.6552 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6271 | 96.4286 | 98.8558 | 65.7524 | 1728 | 64 | 1728 | 20 | 18 | 90.0000 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | * | 98.5968 | 98.3389 | 98.8561 | 85.7695 | 2072 | 35 | 2074 | 24 | 8 | 33.3333 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0609 | 95.3297 | 98.8561 | 56.5082 | 3715 | 182 | 3716 | 43 | 36 | 83.7209 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.9370 | 99.0180 | 98.8562 | 82.4087 | 605 | 6 | 605 | 7 | 6 | 85.7143 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | * | 98.5850 | 98.3151 | 98.8564 | 86.6789 | 2159 | 37 | 2161 | 25 | 8 | 32.0000 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e0 | het | 98.4472 | 98.0412 | 98.8565 | 88.5422 | 1902 | 38 | 1902 | 22 | 0 | 0.0000 | |
| jli-custom | SNP | tv | map_l150_m0_e0 | het | 98.0858 | 97.3268 | 98.8567 | 76.0708 | 2767 | 76 | 2767 | 32 | 7 | 21.8750 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3220 | 99.7917 | 98.8568 | 68.8391 | 1437 | 3 | 1470 | 17 | 0 | 0.0000 | |