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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17201-17250 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | * | HG002complexvar | hetalt | 99.7172 | 99.6774 | 99.7570 | 25.7273 | 309 | 1 | 6978 | 17 | 16 | 94.1176 | |
| astatham-gatk | SNP | * | map_l100_m2_e1 | het | 86.9224 | 77.0139 | 99.7569 | 75.4083 | 36118 | 10780 | 36107 | 88 | 33 | 37.5000 | |
| ghariani-varprowl | SNP | * | func_cds | homalt | 99.8569 | 99.9570 | 99.7569 | 23.2466 | 6976 | 3 | 6976 | 17 | 12 | 70.5882 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | homalt | 80.2348 | 67.1031 | 99.7567 | 75.2260 | 410 | 201 | 410 | 1 | 1 | 100.0000 | |
| qzeng-custom | SNP | tv | HG002complexvar | het | 99.0228 | 98.2997 | 99.7567 | 23.1864 | 148171 | 2563 | 146790 | 358 | 101 | 28.2123 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.4660 | 95.2782 | 99.7566 | 78.6987 | 6558 | 325 | 6558 | 16 | 4 | 25.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | * | 99.1748 | 98.6001 | 99.7563 | 54.0248 | 24158 | 343 | 24152 | 59 | 5 | 8.4746 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.5038 | 95.3512 | 99.7559 | 75.0693 | 3733 | 182 | 3678 | 9 | 6 | 66.6667 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | * | 99.5809 | 99.4065 | 99.7559 | 56.6825 | 33165 | 198 | 33105 | 81 | 67 | 82.7160 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4522 | 99.1505 | 99.7558 | 69.0710 | 817 | 7 | 817 | 2 | 1 | 50.0000 | |
| astatham-gatk | SNP | ti | map_l100_m0_e0 | * | 92.5350 | 86.2891 | 99.7557 | 72.1287 | 18786 | 2985 | 18783 | 46 | 24 | 52.1739 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | * | 99.2488 | 98.7471 | 99.7557 | 52.7857 | 32944 | 418 | 32259 | 79 | 48 | 60.7595 | |
| jli-custom | INDEL | * | HG002compoundhet | hetalt | 96.5598 | 93.5624 | 99.7556 | 52.2097 | 23559 | 1621 | 23678 | 58 | 57 | 98.2759 | |
| ckim-gatk | INDEL | * | HG002complexvar | het | 99.6665 | 99.5780 | 99.7552 | 57.8728 | 46017 | 195 | 45636 | 112 | 64 | 57.1429 | |
| ckim-gatk | INDEL | * | HG002compoundhet | hetalt | 95.5666 | 91.7156 | 99.7551 | 50.3022 | 23094 | 2086 | 23217 | 57 | 57 | 100.0000 | |
| ckim-isaac | SNP | * | map_l100_m2_e0 | het | 81.8136 | 69.3420 | 99.7551 | 67.9608 | 32174 | 14225 | 32181 | 79 | 12 | 15.1899 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8703 | 98.0010 | 99.7551 | 37.4155 | 17894 | 365 | 17924 | 44 | 41 | 93.1818 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7211 | 99.6873 | 99.7550 | 36.7324 | 7332 | 23 | 7328 | 18 | 4 | 22.2222 | |
| ckim-isaac | SNP | * | map_l100_m2_e1 | het | 81.8788 | 69.4358 | 99.7550 | 67.9468 | 32564 | 14334 | 32571 | 80 | 12 | 15.0000 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | hetalt | 95.5428 | 91.6720 | 99.7550 | 50.3140 | 23083 | 2097 | 23206 | 57 | 57 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l100_m2_e1 | * | 75.8227 | 61.1518 | 99.7549 | 67.3250 | 15461 | 9822 | 15464 | 38 | 12 | 31.5789 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 91.8736 | 85.1464 | 99.7549 | 69.6654 | 407 | 71 | 407 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l250_m1_e0 | homalt | 99.4502 | 99.1474 | 99.7549 | 84.1101 | 2442 | 21 | 2442 | 6 | 3 | 50.0000 | |
| gduggal-snapfb | SNP | ti | map_l125_m1_e0 | homalt | 97.7417 | 95.8081 | 99.7549 | 73.6978 | 10582 | 463 | 10583 | 26 | 14 | 53.8462 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8365 | 99.9182 | 99.7549 | 50.2169 | 3663 | 3 | 3663 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2683 | 98.7864 | 99.7549 | 68.4699 | 814 | 10 | 814 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m1_e0 | * | 38.6014 | 23.9309 | 99.7548 | 94.4087 | 7325 | 23284 | 7322 | 18 | 5 | 27.7778 | |
| ndellapenna-hhga | SNP | ti | map_l125_m2_e1 | het | 98.8822 | 98.0248 | 99.7547 | 70.7116 | 18710 | 377 | 18710 | 46 | 20 | 43.4783 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8771 | 100.0000 | 99.7546 | 51.5937 | 2439 | 0 | 2439 | 6 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8403 | 99.9262 | 99.7545 | 48.2662 | 4062 | 3 | 4063 | 10 | 2 | 20.0000 | |
| egarrison-hhga | SNP | * | map_l125_m1_e0 | het | 99.2263 | 98.7039 | 99.7544 | 69.9636 | 28024 | 368 | 28024 | 69 | 28 | 40.5797 | |
| ckim-isaac | SNP | * | map_l100_m1_e0 | het | 81.5197 | 68.9213 | 99.7544 | 66.2256 | 31262 | 14097 | 31269 | 77 | 12 | 15.5844 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6434 | 99.5326 | 99.7544 | 48.4618 | 4046 | 19 | 4061 | 10 | 1 | 10.0000 | |
| bgallagher-sentieon | SNP | * | map_l150_m0_e0 | homalt | 99.5466 | 99.3397 | 99.7544 | 73.4273 | 4062 | 27 | 4062 | 10 | 8 | 80.0000 | |
| jli-custom | SNP | * | map_l250_m1_e0 | homalt | 99.3477 | 98.9444 | 99.7544 | 84.2418 | 2437 | 26 | 2437 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | * | het | 99.2835 | 98.8171 | 99.7543 | 58.7353 | 78106 | 935 | 89725 | 221 | 127 | 57.4661 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | hetalt | 97.3347 | 95.0298 | 99.7542 | 44.1554 | 8126 | 425 | 8116 | 20 | 19 | 95.0000 | |
| jli-custom | SNP | ti | HG002compoundhet | * | 99.7826 | 99.8112 | 99.7541 | 35.5495 | 17445 | 33 | 17445 | 43 | 22 | 51.1628 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | * | 99.2917 | 98.8335 | 99.7541 | 64.3936 | 24741 | 292 | 24741 | 61 | 24 | 39.3443 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4978 | 99.2429 | 99.7541 | 54.5635 | 25167 | 192 | 25148 | 62 | 34 | 54.8387 | |
| ltrigg-rtg1 | SNP | * | map_l250_m1_e0 | * | 97.5589 | 95.4583 | 99.7540 | 82.3017 | 6894 | 328 | 6894 | 17 | 9 | 52.9412 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6632 | 95.6583 | 99.7539 | 76.8156 | 4054 | 184 | 4054 | 10 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e0 | * | 40.8545 | 25.6874 | 99.7538 | 94.2642 | 5269 | 15243 | 5267 | 13 | 5 | 38.4615 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6703 | 97.6102 | 99.7536 | 44.9684 | 3676 | 90 | 3644 | 9 | 7 | 77.7778 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6703 | 97.6102 | 99.7536 | 44.9684 | 3676 | 90 | 3644 | 9 | 7 | 77.7778 | |
| astatham-gatk | SNP | * | map_l100_m1_e0 | het | 86.7442 | 76.7367 | 99.7535 | 74.2815 | 34807 | 10552 | 34796 | 86 | 33 | 38.3721 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | * | 39.5063 | 24.6305 | 99.7534 | 94.8804 | 2833 | 8669 | 2832 | 7 | 1 | 14.2857 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | hetalt | 80.3857 | 67.3160 | 99.7534 | 60.0394 | 6877 | 3339 | 6877 | 17 | 17 | 100.0000 | |
| qzeng-custom | SNP | * | * | * | 99.4966 | 99.2413 | 99.7533 | 22.5407 | 3031458 | 23176 | 3012983 | 7452 | 1530 | 20.5314 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m0_e0 | het | 97.4302 | 95.2129 | 99.7533 | 66.6849 | 4853 | 244 | 4853 | 12 | 3 | 25.0000 | |