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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13351-13400 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | homalt | 77.4376 | 63.1930 | 99.9729 | 75.4660 | 11079 | 6453 | 11079 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | SNP | * | * | * | 99.9587 | 99.9447 | 99.9728 | 19.0681 | 3052930 | 1689 | 3052766 | 832 | 433 | 52.0433 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | homalt | 78.0137 | 63.9640 | 99.9727 | 74.8162 | 7329 | 4129 | 7329 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | * | HG002complexvar | * | 99.9396 | 99.9065 | 99.9727 | 19.0201 | 753676 | 705 | 753565 | 206 | 91 | 44.1748 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7295 | 95.5848 | 99.9727 | 30.0745 | 3637 | 168 | 3661 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | homalt | 77.2870 | 62.9928 | 99.9726 | 75.5188 | 10945 | 6430 | 10945 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7001 | 99.4290 | 99.9726 | 32.1925 | 7313 | 42 | 7309 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6470 | 95.4271 | 99.9726 | 29.9483 | 3631 | 174 | 3655 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | * | het | 99.3521 | 98.7393 | 99.9725 | 20.1637 | 1849967 | 23620 | 1849845 | 508 | 95 | 18.7008 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9221 | 99.8717 | 99.9725 | 60.1200 | 10897 | 14 | 10893 | 3 | 2 | 66.6667 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.2879 | 94.7438 | 99.9725 | 25.8927 | 3605 | 200 | 3631 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.2324 | 94.6386 | 99.9724 | 29.4827 | 3601 | 204 | 3625 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e0 | homalt | 77.8495 | 63.7436 | 99.9724 | 74.8690 | 7240 | 4118 | 7240 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7867 | 99.6017 | 99.9723 | 54.3769 | 25258 | 101 | 25260 | 7 | 3 | 42.8571 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0656 | 94.3233 | 99.9723 | 28.7295 | 3589 | 216 | 3606 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | homalt | 99.9052 | 99.8382 | 99.9722 | 19.7176 | 288107 | 467 | 288052 | 80 | 73 | 91.2500 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | homalt | 55.8010 | 38.7014 | 99.9722 | 81.3226 | 3600 | 5702 | 3600 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | HG002complexvar | het | 99.9477 | 99.9234 | 99.9720 | 16.9632 | 314525 | 241 | 314471 | 88 | 29 | 32.9545 | |
| raldana-dualsentieon | SNP | tv | HG002complexvar | het | 99.7643 | 99.5575 | 99.9720 | 20.9789 | 150064 | 667 | 149985 | 42 | 9 | 21.4286 | |
| jmaeng-gatk | SNP | tv | map_l125_m1_e0 | homalt | 75.6286 | 60.8191 | 99.9719 | 74.7843 | 3564 | 2296 | 3564 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2944 | 92.8778 | 99.9719 | 25.4138 | 3534 | 271 | 3559 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6600 | 95.4525 | 99.9719 | 30.6839 | 10600 | 505 | 10680 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2661 | 92.8252 | 99.9719 | 25.4244 | 3532 | 273 | 3557 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e0 | homalt | 55.5756 | 38.4849 | 99.9718 | 81.4225 | 3546 | 5668 | 3546 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 97.2852 | 94.7392 | 99.9718 | 57.2014 | 10589 | 588 | 10650 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.0820 | 92.4836 | 99.9718 | 25.6399 | 3519 | 286 | 3543 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4426 | 95.0383 | 99.9718 | 29.9341 | 10554 | 551 | 10633 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | SNP | ti | * | homalt | 99.5201 | 99.0724 | 99.9718 | 15.7269 | 795590 | 7449 | 791466 | 223 | 186 | 83.4081 | |
| astatham-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 97.1718 | 94.5245 | 99.9718 | 56.8751 | 10565 | 612 | 10626 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0810 | 98.2062 | 99.9717 | 26.1765 | 7117 | 130 | 7057 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | hetalt | 96.7731 | 93.7729 | 99.9716 | 58.2211 | 10481 | 696 | 10542 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | * | * | 99.9443 | 99.9171 | 99.9715 | 21.1004 | 968886 | 804 | 968804 | 276 | 31 | 11.2319 | |
| ltrigg-rtg1 | SNP | ti | HG002complexvar | homalt | 99.9028 | 99.8341 | 99.9715 | 18.2456 | 193142 | 321 | 193049 | 55 | 54 | 98.1818 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.7144 | 62.2360 | 99.9715 | 73.5225 | 10521 | 6384 | 10521 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7358 | 99.5014 | 99.9714 | 60.2855 | 6984 | 35 | 6981 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | hetalt | 96.4336 | 93.1377 | 99.9714 | 55.3771 | 10410 | 767 | 10470 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | * | * | 99.9383 | 99.9053 | 99.9713 | 20.8629 | 968772 | 918 | 968691 | 278 | 43 | 15.4676 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | homalt | 77.2828 | 62.9878 | 99.9713 | 72.8260 | 6957 | 4088 | 6957 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | tv | map_siren | homalt | 89.3303 | 80.7367 | 99.9713 | 58.2484 | 13919 | 3321 | 13916 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | SNP | * | HG002complexvar | het | 99.8978 | 99.8245 | 99.9712 | 18.3215 | 464680 | 817 | 464534 | 134 | 101 | 75.3731 | |
| dgrover-gatk | SNP | * | HG002complexvar | het | 99.9434 | 99.9156 | 99.9712 | 18.5452 | 465104 | 393 | 464974 | 134 | 53 | 39.5522 | |
| ckim-gatk | SNP | tv | map_siren | homalt | 89.2983 | 80.6845 | 99.9712 | 58.8566 | 13910 | 3330 | 13907 | 4 | 3 | 75.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | homalt | 99.5212 | 99.0753 | 99.9711 | 52.6911 | 10500 | 98 | 10378 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8406 | 99.7106 | 99.9710 | 62.7500 | 3445 | 10 | 3445 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8261 | 99.6816 | 99.9710 | 63.0365 | 3444 | 11 | 3444 | 1 | 0 | 0.0000 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8116 | 99.6527 | 99.9710 | 62.5408 | 3443 | 12 | 3443 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.9420 | 99.9130 | 99.9710 | 37.2906 | 3447 | 3 | 3443 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | map_siren | homalt | 99.9013 | 99.8318 | 99.9710 | 52.2802 | 17211 | 29 | 17208 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8261 | 99.6816 | 99.9710 | 63.3120 | 3444 | 11 | 3444 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8696 | 99.7685 | 99.9710 | 64.2990 | 3447 | 8 | 3447 | 1 | 1 | 100.0000 | |