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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22651-22700 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | C6_15 | * | * | 95.9554 | 100.0000 | 92.2252 | 93.7957 | 7 | 0 | 344 | 29 | 11 | 37.9310 | |
| qzeng-custom | INDEL | D6_15 | map_l150_m2_e0 | * | 84.5874 | 82.9268 | 86.3158 | 93.7949 | 68 | 14 | 82 | 13 | 6 | 46.1538 | |
| asubramanian-gatk | INDEL | C1_5 | map_siren | * | 0.0000 | 0.0000 | 93.7931 | 0 | 0 | 0 | 9 | 0 | 0.0000 | ||
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 86.6667 | 93.7931 | 0 | 1 | 78 | 12 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | * | * | 98.7212 | 100.0000 | 97.4747 | 93.7931 | 7 | 0 | 386 | 10 | 3 | 30.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l250_m1_e0 | homalt | 99.1150 | 98.2456 | 100.0000 | 93.7916 | 56 | 1 | 56 | 0 | 0 | ||
| astatham-gatk | SNP | * | map_l250_m0_e0 | * | 93.8786 | 89.7892 | 98.3581 | 93.7904 | 1917 | 218 | 1917 | 32 | 8 | 25.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 51.8519 | 93.3333 | 35.8974 | 93.7898 | 14 | 1 | 14 | 25 | 7 | 28.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l250_m2_e0 | * | 95.4627 | 92.9204 | 98.1481 | 93.7895 | 105 | 8 | 106 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | map_l150_m1_e0 | het | 94.3374 | 98.0117 | 90.9287 | 93.7882 | 838 | 17 | 842 | 84 | 6 | 7.1429 | |
| jmaeng-gatk | INDEL | I6_15 | map_l100_m0_e0 | * | 87.5000 | 84.8485 | 90.3226 | 93.7876 | 28 | 5 | 28 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m1_e0 | * | 74.9249 | 60.1205 | 99.4024 | 93.7871 | 499 | 331 | 499 | 3 | 1 | 33.3333 | |
| eyeh-varpipe | INDEL | C1_5 | * | hetalt | 93.8017 | 100.0000 | 88.3268 | 93.7870 | 1 | 0 | 454 | 60 | 55 | 91.6667 | |
| ckim-isaac | INDEL | D6_15 | map_l150_m2_e1 | * | 52.9915 | 36.4706 | 96.8750 | 93.7864 | 31 | 54 | 31 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 87.5000 | 93.7853 | 0 | 1 | 77 | 11 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 71.3745 | 60.3412 | 87.3457 | 93.7848 | 283 | 186 | 283 | 41 | 21 | 51.2195 | |
| ghariani-varprowl | INDEL | I6_15 | segdup | het | 83.2383 | 97.5904 | 72.5664 | 93.7844 | 81 | 2 | 82 | 31 | 31 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 51.0719 | 55.5556 | 47.2579 | 93.7840 | 400 | 320 | 405 | 452 | 26 | 5.7522 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e0 | het | 94.2857 | 92.9577 | 95.6522 | 93.7838 | 66 | 5 | 66 | 3 | 1 | 33.3333 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l125_m2_e0 | * | 56.7568 | 77.7778 | 44.6809 | 93.7831 | 21 | 6 | 21 | 26 | 3 | 11.5385 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | * | 68.2974 | 51.9708 | 99.5804 | 93.7826 | 712 | 658 | 712 | 3 | 1 | 33.3333 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l125_m0_e0 | * | 100.0000 | 100.0000 | 100.0000 | 93.7824 | 12 | 0 | 12 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | map_l150_m1_e0 | homalt | 64.3172 | 47.4026 | 100.0000 | 93.7819 | 219 | 243 | 219 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l125_m1_e0 | het | 94.4882 | 93.7500 | 95.2381 | 93.7808 | 60 | 4 | 60 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 88.5572 | 91.7526 | 85.5769 | 93.7799 | 89 | 8 | 89 | 15 | 3 | 20.0000 | |
| raldana-dualsentieon | INDEL | * | segdup | hetalt | 96.0000 | 92.3077 | 100.0000 | 93.7787 | 120 | 10 | 122 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.1220 | 95.1220 | 95.1220 | 93.7785 | 39 | 2 | 39 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l125_m2_e0 | homalt | 96.5517 | 93.3333 | 100.0000 | 93.7778 | 14 | 1 | 14 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | map_l125_m2_e0 | homalt | 96.5517 | 93.3333 | 100.0000 | 93.7778 | 14 | 1 | 14 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | map_l150_m0_e0 | het | 95.6938 | 94.3396 | 97.0874 | 93.7764 | 100 | 6 | 100 | 3 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 85.1501 | 95.7447 | 76.6667 | 93.7759 | 45 | 2 | 23 | 7 | 7 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l250_m1_e0 | het | 88.8718 | 97.2020 | 81.8567 | 93.7753 | 1737 | 50 | 1737 | 385 | 18 | 4.6753 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m0_e0 | het | 95.2090 | 97.9167 | 92.6471 | 93.7748 | 188 | 4 | 189 | 15 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | map_l150_m0_e0 | homalt | 32.3149 | 19.2712 | 100.0000 | 93.7742 | 788 | 3301 | 788 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | segdup | * | 95.2880 | 95.2880 | 95.2880 | 93.7724 | 182 | 9 | 182 | 9 | 5 | 55.5556 | |
| jlack-gatk | INDEL | D16_PLUS | map_siren | homalt | 91.4286 | 94.1176 | 88.8889 | 93.7716 | 32 | 2 | 32 | 4 | 1 | 25.0000 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e0 | hetalt | 93.6709 | 88.0952 | 100.0000 | 93.7710 | 37 | 5 | 37 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | het | 94.6619 | 95.0192 | 94.3074 | 93.7699 | 496 | 26 | 497 | 30 | 3 | 10.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l250_m1_e0 | homalt | 51.9481 | 35.0877 | 100.0000 | 93.7695 | 20 | 37 | 20 | 0 | 0 | ||
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.4359 | 100.0000 | 95.0000 | 93.7695 | 1 | 0 | 19 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l250_m2_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 93.7695 | 60 | 0 | 60 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I6_15 | segdup | het | 98.1818 | 97.5904 | 98.7805 | 93.7690 | 81 | 2 | 81 | 1 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | map_l250_m1_e0 | het | 90.7389 | 97.8759 | 84.5721 | 93.7676 | 4654 | 101 | 4654 | 849 | 57 | 6.7138 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e1 | het | 57.4870 | 54.9296 | 60.2941 | 93.7672 | 39 | 32 | 41 | 27 | 5 | 18.5185 | |
| ciseli-custom | INDEL | I1_5 | segdup | * | 88.5870 | 87.6298 | 89.5652 | 93.7669 | 928 | 131 | 927 | 108 | 88 | 81.4815 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l125_m2_e1 | * | 55.2632 | 75.0000 | 43.7500 | 93.7662 | 21 | 7 | 21 | 27 | 3 | 11.1111 | |
| eyeh-varpipe | INDEL | C1_5 | HG002compoundhet | het | 0.0000 | 0.0000 | 39.2857 | 93.7639 | 0 | 0 | 11 | 17 | 14 | 82.3529 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m1_e0 | het | 72.3508 | 65.5602 | 80.7107 | 93.7629 | 316 | 166 | 318 | 76 | 19 | 25.0000 | |
| jlack-gatk | SNP | ti | map_l250_m1_e0 | het | 91.8885 | 98.2817 | 86.2762 | 93.7627 | 2917 | 51 | 2917 | 464 | 39 | 8.4052 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 90.9091 | 83.3333 | 100.0000 | 93.7600 | 40 | 8 | 39 | 0 | 0 | ||