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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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81301-81350 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6175 | 96.0100 | 99.2797 | 41.3870 | 8061 | 335 | 16539 | 120 | 106 | 88.3333 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | * | 99.4888 | 99.3156 | 99.6626 | 71.0607 | 16543 | 114 | 16541 | 56 | 16 | 28.5714 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | * | 99.2530 | 99.3156 | 99.1905 | 74.7864 | 16543 | 114 | 16541 | 135 | 27 | 20.0000 | |
| ckim-isaac | SNP | * | map_l150_m1_e0 | * | 70.0877 | 54.0364 | 99.7046 | 76.2708 | 16540 | 14069 | 16541 | 49 | 12 | 24.4898 | |
| gduggal-snapvard | SNP | tv | map_siren | homalt | 98.2279 | 96.6415 | 99.8673 | 55.2791 | 16661 | 579 | 16552 | 22 | 13 | 59.0909 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | * | 99.3046 | 99.4537 | 99.1559 | 73.9708 | 16566 | 91 | 16564 | 141 | 16 | 11.3475 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | * | 99.5225 | 99.4777 | 99.5673 | 71.4702 | 16570 | 87 | 16568 | 72 | 10 | 13.8889 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | * | 99.1800 | 99.4837 | 98.8781 | 73.5318 | 16571 | 86 | 16569 | 188 | 28 | 14.8936 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9649 | 98.5390 | 99.3944 | 72.2038 | 16727 | 248 | 16577 | 101 | 58 | 57.4257 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9649 | 98.5390 | 99.3944 | 72.2038 | 16727 | 248 | 16577 | 101 | 58 | 57.4257 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | homalt | 91.1050 | 90.7805 | 91.4319 | 61.7718 | 16621 | 1688 | 16583 | 1554 | 1237 | 79.6010 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e1 | homalt | 97.9034 | 96.0929 | 99.7834 | 68.5949 | 16847 | 685 | 16588 | 36 | 28 | 77.7778 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.3802 | 93.5166 | 99.4246 | 60.9201 | 16429 | 1139 | 16588 | 96 | 15 | 15.6250 | |
| qzeng-custom | SNP | * | HG002compoundhet | het | 97.8777 | 97.6372 | 98.1193 | 49.7459 | 13843 | 335 | 16591 | 318 | 73 | 22.9560 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0495 | 96.4138 | 99.7416 | 53.4125 | 16561 | 616 | 16599 | 43 | 38 | 88.3721 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.2830 | 86.8621 | 93.9845 | 38.9075 | 10876 | 1645 | 16608 | 1063 | 1029 | 96.8015 | |
| astatham-gatk | SNP | ti | map_l150_m1_e0 | * | 91.3534 | 84.2837 | 99.7178 | 78.6410 | 16614 | 3098 | 16610 | 47 | 26 | 55.3191 | |
| gduggal-snapplat | SNP | ti | map_l100_m1_e0 | homalt | 96.1786 | 92.7004 | 99.9279 | 60.1160 | 16649 | 1311 | 16632 | 12 | 12 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9677 | 97.9853 | 99.9699 | 67.4084 | 16633 | 342 | 16633 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9677 | 97.9853 | 99.9699 | 67.4084 | 16633 | 342 | 16633 | 5 | 5 | 100.0000 | |
| ghariani-varprowl | SNP | * | map_l125_m1_e0 | homalt | 99.0868 | 98.5271 | 99.6530 | 67.5166 | 16656 | 249 | 16656 | 58 | 39 | 67.2414 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 62.4770 | 93.3666 | 46.9454 | 60.6415 | 16637 | 1182 | 16660 | 18828 | 18130 | 96.2928 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | homalt | 99.1107 | 98.5566 | 99.6710 | 69.6349 | 16661 | 244 | 16661 | 55 | 40 | 72.7273 | |
| jlack-gatk | SNP | * | map_l125_m1_e0 | homalt | 99.2141 | 98.5685 | 99.8681 | 64.3628 | 16663 | 242 | 16663 | 22 | 16 | 72.7273 | |
| gduggal-bwavard | SNP | tv | map_siren | homalt | 98.5863 | 97.3028 | 99.9041 | 54.3761 | 16775 | 465 | 16665 | 16 | 12 | 75.0000 | |
| gduggal-bwaplat | SNP | tv | map_l100_m1_e0 | * | 80.7967 | 68.0462 | 99.4275 | 83.4681 | 16672 | 7829 | 16673 | 96 | 19 | 19.7917 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.3446 | 44.0478 | 46.7201 | 60.8982 | 16695 | 21207 | 16673 | 19014 | 18688 | 98.2855 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e0 | homalt | 97.8012 | 96.0000 | 99.6714 | 76.3723 | 16680 | 695 | 16681 | 55 | 21 | 38.1818 | |
| gduggal-bwavard | SNP | * | map_l125_m2_e0 | homalt | 98.6652 | 97.4964 | 99.8623 | 68.6081 | 16940 | 435 | 16685 | 23 | 18 | 78.2609 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | * | 70.8577 | 55.1491 | 99.0796 | 88.2228 | 16687 | 13571 | 16685 | 155 | 5 | 3.2258 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0126 | 97.4325 | 98.5996 | 53.5616 | 15635 | 412 | 16687 | 237 | 217 | 91.5612 | |
| gduggal-snapvard | SNP | * | segdup | het | 98.1316 | 97.2975 | 98.9803 | 94.4886 | 16849 | 468 | 16695 | 172 | 22 | 12.7907 | |
| anovak-vg | SNP | * | segdup | het | 97.2290 | 97.3206 | 97.1375 | 93.7111 | 16853 | 464 | 16696 | 492 | 128 | 26.0163 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.6952 | 95.8752 | 97.5293 | 67.9232 | 17084 | 735 | 16698 | 423 | 393 | 92.9078 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.6332 | 88.2406 | 95.2970 | 51.5896 | 15593 | 2078 | 16717 | 825 | 785 | 95.1515 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.6332 | 88.2406 | 95.2970 | 51.5896 | 15593 | 2078 | 16717 | 825 | 785 | 95.1515 | |
| gduggal-bwavard | SNP | * | segdup | het | 98.1974 | 97.4649 | 98.9410 | 94.6418 | 16878 | 439 | 16724 | 179 | 23 | 12.8492 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.4591 | 98.7277 | 98.1920 | 68.0700 | 3492 | 45 | 16727 | 308 | 247 | 80.1948 | |
| eyeh-varpipe | SNP | * | map_l125_m2_e0 | homalt | 99.8542 | 99.8158 | 99.8925 | 71.0277 | 17343 | 32 | 16728 | 18 | 10 | 55.5556 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8586 | 98.2884 | 99.4354 | 55.5329 | 16883 | 294 | 16730 | 95 | 59 | 62.1053 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.2445 | 96.0604 | 98.4581 | 67.5236 | 17117 | 702 | 16730 | 262 | 221 | 84.3511 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.6868 | 98.3466 | 99.0294 | 55.2658 | 16893 | 284 | 16733 | 164 | 41 | 25.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1966 | 96.0492 | 98.3718 | 68.1010 | 17115 | 704 | 16736 | 277 | 229 | 82.6715 | |
| mlin-fermikit | SNP | * | segdup | het | 97.6489 | 96.6622 | 98.6560 | 85.6660 | 16739 | 578 | 16736 | 228 | 1 | 0.4386 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 69.0612 | 65.8068 | 72.6543 | 37.5809 | 16149 | 8391 | 16741 | 6301 | 4632 | 73.5121 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.5302 | 94.7711 | 96.3016 | 56.4893 | 16747 | 924 | 16743 | 643 | 577 | 89.7356 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.5302 | 94.7711 | 96.3016 | 56.4893 | 16747 | 924 | 16743 | 643 | 577 | 89.7356 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | homalt | 99.4624 | 99.0476 | 99.8807 | 63.5573 | 16744 | 161 | 16744 | 20 | 16 | 80.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.2261 | 96.1390 | 98.3380 | 67.3449 | 17131 | 688 | 16745 | 283 | 223 | 78.7986 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4857 | 98.0964 | 96.8826 | 61.5590 | 15460 | 300 | 16751 | 539 | 278 | 51.5770 | |