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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62151-62200 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | func_cds | * | 98.5581 | 98.0331 | 99.0887 | 29.8522 | 17793 | 357 | 17724 | 163 | 111 | 68.0982 | |
| rpoplin-dv42 | SNP | * | * | hetalt | 99.4854 | 99.8852 | 99.0888 | 49.8858 | 870 | 1 | 870 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | * | hetalt | 99.4854 | 99.8852 | 99.0888 | 49.8858 | 870 | 1 | 870 | 8 | 8 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9812 | 98.8739 | 99.0888 | 73.5383 | 439 | 5 | 435 | 4 | 0 | 0.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9013 | 96.7415 | 99.0893 | 45.1717 | 12113 | 408 | 33076 | 304 | 254 | 83.5526 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.6730 | 92.4844 | 99.0893 | 41.0583 | 3261 | 265 | 3808 | 35 | 33 | 94.2857 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.6730 | 92.4844 | 99.0893 | 41.0583 | 3261 | 265 | 3808 | 35 | 33 | 94.2857 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002compoundhet | * | 97.8414 | 96.6244 | 99.0893 | 63.2729 | 11822 | 413 | 11860 | 109 | 80 | 73.3945 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4449 | 95.8541 | 99.0894 | 62.1020 | 2312 | 100 | 2394 | 22 | 17 | 77.2727 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1580 | 99.2264 | 99.0896 | 88.0562 | 1411 | 11 | 1415 | 13 | 6 | 46.1538 | |
| asubramanian-gatk | INDEL | I6_15 | * | hetalt | 94.9273 | 91.1005 | 99.0896 | 39.2643 | 7790 | 761 | 7837 | 72 | 68 | 94.4444 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | homalt | 98.7906 | 98.4933 | 99.0897 | 41.6927 | 6145 | 94 | 6096 | 56 | 49 | 87.5000 | |
| hfeng-pmm2 | SNP | ti | map_l125_m2_e1 | het | 99.1807 | 99.2718 | 99.0899 | 75.4485 | 18948 | 139 | 18944 | 174 | 14 | 8.0460 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | het | 95.7312 | 92.5926 | 99.0900 | 55.4905 | 1025 | 82 | 980 | 9 | 3 | 33.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002compoundhet | hetalt | 77.8263 | 64.0760 | 99.0905 | 66.4524 | 6546 | 3670 | 6101 | 56 | 47 | 83.9286 | |
| hfeng-pmm2 | SNP | * | map_l150_m1_e0 | * | 99.2283 | 99.3662 | 99.0908 | 76.3631 | 30415 | 194 | 30409 | 279 | 34 | 12.1864 | |
| jli-custom | SNP | * | map_l150_m0_e0 | het | 98.2666 | 97.4559 | 99.0908 | 76.5432 | 7738 | 202 | 7738 | 71 | 22 | 30.9859 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m0_e0 | homalt | 97.3214 | 95.6140 | 99.0909 | 79.4007 | 109 | 5 | 109 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 88.8034 | 80.4511 | 99.0909 | 74.7706 | 107 | 26 | 109 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | * | map_l250_m2_e0 | homalt | 96.8889 | 94.7826 | 99.0909 | 94.5893 | 109 | 6 | 109 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | map_l250_m2_e0 | het | 97.2703 | 95.5155 | 99.0909 | 86.8763 | 1853 | 87 | 1853 | 17 | 8 | 47.0588 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 57.6052 | 40.6053 | 99.0909 | 37.5000 | 322 | 471 | 327 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9820 | 98.8732 | 99.0909 | 66.0303 | 1053 | 12 | 1199 | 11 | 11 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 82.9104 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 83.2146 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | homalt | 98.8342 | 98.5788 | 99.0909 | 86.5970 | 763 | 11 | 763 | 7 | 4 | 57.1429 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e0 | het | 82.4197 | 70.5502 | 99.0909 | 92.6224 | 218 | 91 | 218 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.7780 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.2073 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 81.8382 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | * | map_l100_m1_e0 | hetalt | 92.7075 | 87.0968 | 99.0909 | 87.3418 | 108 | 16 | 109 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.5434 | 100.0000 | 99.0909 | 82.1429 | 327 | 0 | 327 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m1_e0 | homalt | 97.7738 | 96.4912 | 99.0909 | 85.2646 | 220 | 8 | 218 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6306 | 98.1744 | 99.0911 | 41.2071 | 24092 | 448 | 24094 | 221 | 211 | 95.4751 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.8997 | 98.7080 | 99.0921 | 87.0551 | 764 | 10 | 764 | 7 | 4 | 57.1429 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e1 | * | 99.1573 | 99.2225 | 99.0922 | 71.3931 | 46835 | 367 | 46829 | 429 | 15 | 3.4965 | |
| hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | het | 98.8393 | 98.5874 | 99.0925 | 80.9472 | 5025 | 72 | 5023 | 46 | 8 | 17.3913 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | homalt | 84.5342 | 73.7055 | 99.0926 | 73.0694 | 1637 | 584 | 1638 | 15 | 12 | 80.0000 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | * | 99.2132 | 99.3340 | 99.0926 | 69.0197 | 21626 | 145 | 21623 | 198 | 35 | 17.6768 | |
| gduggal-bwaplat | INDEL | * | map_l150_m2_e0 | het | 74.9485 | 60.2649 | 99.0926 | 96.4657 | 546 | 360 | 546 | 5 | 1 | 20.0000 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | het | 98.6121 | 98.1362 | 99.0926 | 55.1360 | 17850 | 339 | 18675 | 171 | 70 | 40.9357 | |
| astatham-gatk | SNP | tv | map_l150_m0_e0 | het | 91.2506 | 84.5586 | 99.0928 | 85.6322 | 2404 | 439 | 2403 | 22 | 3 | 13.6364 | |
| ltrigg-rtg1 | SNP | * | func_cds | het | 99.4644 | 99.8387 | 99.0928 | 23.2229 | 11143 | 18 | 11142 | 102 | 1 | 0.9804 | |
| gduggal-bwaplat | SNP | ti | map_l250_m0_e0 | * | 48.2606 | 31.8978 | 99.0930 | 98.5682 | 437 | 933 | 437 | 4 | 0 | 0.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7388 | 98.3871 | 99.0930 | 40.5118 | 3843 | 63 | 3824 | 35 | 6 | 17.1429 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002complexvar | het | 95.7688 | 92.6603 | 99.0931 | 57.6076 | 2891 | 229 | 2841 | 26 | 24 | 92.3077 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m2_e0 | homalt | 97.6190 | 96.1877 | 99.0937 | 79.2996 | 328 | 13 | 328 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.1395 | 99.1848 | 99.0942 | 85.7787 | 1095 | 9 | 1094 | 10 | 8 | 80.0000 | |