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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4951-5000 / 86044 show all | |||||||||||||||
| cchapple-custom | SNP | tv | map_l100_m2_e1 | het | 96.3138 | 98.0926 | 94.5983 | 75.6213 | 15634 | 304 | 15674 | 895 | 134 | 14.9721 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e0 | het | 97.2146 | 99.3218 | 95.1950 | 76.6930 | 15670 | 107 | 15671 | 791 | 98 | 12.3894 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8670 | 96.7220 | 99.0393 | 65.6223 | 15550 | 527 | 15670 | 152 | 41 | 26.9737 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8670 | 96.7220 | 99.0393 | 65.6223 | 15550 | 527 | 15670 | 152 | 41 | 26.9737 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e0 | het | 99.1552 | 99.3345 | 98.9766 | 69.6214 | 15672 | 105 | 15668 | 162 | 1 | 0.6173 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m2_e1 | het | 98.9548 | 98.3185 | 99.5995 | 57.2767 | 15670 | 268 | 15666 | 63 | 5 | 7.9365 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | het | 94.4020 | 99.3218 | 89.9466 | 81.2769 | 15670 | 107 | 15666 | 1751 | 90 | 5.1399 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4067 | 97.3876 | 99.4474 | 67.5648 | 15657 | 420 | 15658 | 87 | 73 | 83.9080 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4067 | 97.3876 | 99.4474 | 67.5648 | 15657 | 420 | 15658 | 87 | 73 | 83.9080 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.0368 | 92.3975 | 99.9745 | 38.5038 | 15435 | 1270 | 15656 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.0368 | 92.3975 | 99.9745 | 38.5038 | 15435 | 1270 | 15656 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9081 | 96.5168 | 99.3401 | 63.4667 | 15517 | 560 | 15655 | 104 | 87 | 83.6538 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9081 | 96.5168 | 99.3401 | 63.4667 | 15517 | 560 | 15655 | 104 | 87 | 83.6538 | |
| hfeng-pmm1 | SNP | tv | map_l100_m2_e0 | het | 99.4695 | 99.2394 | 99.7006 | 66.3242 | 15657 | 120 | 15653 | 47 | 12 | 25.5319 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | het | 88.9909 | 82.0139 | 97.2654 | 86.9813 | 15654 | 3433 | 15650 | 440 | 39 | 8.8636 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | het | 98.0513 | 99.1697 | 96.9579 | 75.2085 | 15646 | 131 | 15649 | 491 | 32 | 6.5173 | |
| gduggal-snapplat | SNP | * | map_l125_m2_e1 | homalt | 94.3221 | 89.3053 | 99.9361 | 69.8871 | 15657 | 1875 | 15646 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | SNP | tv | map_l125_m1_e0 | * | 94.9586 | 97.9708 | 92.1260 | 78.9367 | 15691 | 325 | 15643 | 1337 | 72 | 5.3852 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 93.5778 | 91.1697 | 96.1165 | 54.9134 | 14630 | 1417 | 15642 | 632 | 605 | 95.7278 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e0 | het | 99.1350 | 99.1697 | 99.1004 | 66.6194 | 15646 | 131 | 15642 | 142 | 59 | 41.5493 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | het | 99.2133 | 99.1190 | 99.3078 | 65.8320 | 15638 | 139 | 15637 | 109 | 24 | 22.0183 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.7873 | 98.1180 | 99.4657 | 52.4428 | 15745 | 302 | 15637 | 84 | 58 | 69.0476 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4417 | 95.1488 | 89.8844 | 58.8124 | 15632 | 797 | 15630 | 1759 | 720 | 40.9323 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | het | 98.4689 | 99.0556 | 97.8891 | 72.5475 | 15628 | 149 | 15628 | 337 | 48 | 14.2433 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m2_e1 | het | 98.8079 | 98.0299 | 99.5983 | 53.4836 | 15624 | 314 | 15620 | 63 | 2 | 3.1746 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6849 | 97.2767 | 98.0965 | 60.4473 | 15610 | 437 | 15615 | 303 | 282 | 93.0693 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2099 | 97.0828 | 99.3634 | 67.3172 | 15608 | 469 | 15609 | 100 | 84 | 84.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2099 | 97.0828 | 99.3634 | 67.3172 | 15608 | 469 | 15609 | 100 | 84 | 84.0000 | |
| egarrison-hhga | SNP | tv | map_l100_m2_e0 | het | 99.3093 | 98.8845 | 99.7379 | 65.3478 | 15601 | 176 | 15601 | 41 | 13 | 31.7073 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.4805 | 97.1646 | 97.7985 | 57.9258 | 15592 | 455 | 15593 | 351 | 340 | 96.8661 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2447 | 97.1397 | 99.3753 | 55.6990 | 15588 | 459 | 15589 | 98 | 89 | 90.8163 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e1 | het | 94.4719 | 98.1303 | 91.0764 | 80.3818 | 15640 | 298 | 15585 | 1527 | 90 | 5.8939 | |
| cchapple-custom | SNP | tv | map_l125_m1_e0 | * | 96.5512 | 97.3027 | 95.8113 | 74.0329 | 15584 | 432 | 15577 | 681 | 116 | 17.0338 | |
| gduggal-snapfb | SNP | tv | map_l125_m1_e0 | * | 96.8139 | 97.2340 | 96.3974 | 74.1586 | 15573 | 443 | 15573 | 582 | 212 | 36.4261 | |
| ciseli-custom | SNP | ti | map_l150_m2_e1 | * | 79.2822 | 75.1146 | 83.9394 | 81.3843 | 15566 | 5157 | 15559 | 2977 | 763 | 25.6298 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002complexvar | het | 91.7425 | 85.6452 | 98.7744 | 60.7292 | 15578 | 2611 | 15555 | 193 | 126 | 65.2850 | |
| eyeh-varpipe | SNP | tv | map_l100_m2_e0 | het | 96.0096 | 99.7465 | 92.5426 | 72.2574 | 15737 | 40 | 15549 | 1253 | 16 | 1.2769 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1193 | 96.7034 | 99.5773 | 66.6375 | 15547 | 530 | 15547 | 66 | 50 | 75.7576 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1193 | 96.7034 | 99.5773 | 66.6375 | 15547 | 530 | 15547 | 66 | 50 | 75.7576 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0410 | 96.8402 | 99.2720 | 68.1668 | 15569 | 508 | 15546 | 114 | 94 | 82.4561 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0410 | 96.8402 | 99.2720 | 68.1668 | 15569 | 508 | 15546 | 114 | 94 | 82.4561 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9726 | 98.5812 | 99.3672 | 71.8268 | 15356 | 221 | 15545 | 99 | 39 | 39.3939 | |