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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78701-78750 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.5254 | 99.5254 | 99.5254 | 68.0722 | 9646 | 46 | 9646 | 46 | 24 | 52.1739 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | hetalt | 97.1670 | 94.5086 | 99.9793 | 58.9151 | 9655 | 561 | 9655 | 2 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7314 | 99.6182 | 99.8449 | 68.2587 | 9655 | 37 | 9655 | 15 | 13 | 86.6667 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | het | 77.4408 | 91.5759 | 67.0858 | 78.0971 | 9664 | 889 | 9657 | 4738 | 1048 | 22.1190 | |
| raldana-dualsentieon | INDEL | D1_5 | * | hetalt | 96.8333 | 93.8702 | 99.9896 | 62.1760 | 9617 | 628 | 9660 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7367 | 99.6698 | 99.8037 | 67.8161 | 9660 | 32 | 9660 | 19 | 12 | 63.1579 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 86.1593 | 93.2312 | 80.0845 | 46.3972 | 5661 | 411 | 9663 | 2403 | 2342 | 97.4615 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7677 | 99.7111 | 99.8244 | 68.3834 | 9664 | 28 | 9664 | 17 | 12 | 70.5882 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7162 | 99.7111 | 99.7214 | 67.6049 | 9664 | 28 | 9664 | 27 | 20 | 74.0741 | |
| ckim-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7780 | 99.7214 | 99.8347 | 68.2340 | 9665 | 27 | 9665 | 16 | 13 | 81.2500 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7832 | 99.7317 | 99.8347 | 68.1691 | 9666 | 26 | 9666 | 16 | 12 | 75.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7729 | 99.7421 | 99.8038 | 67.8356 | 9667 | 25 | 9667 | 19 | 15 | 78.9474 | |
| asubramanian-gatk | INDEL | D1_5 | * | hetalt | 96.4051 | 93.9092 | 99.0373 | 64.2371 | 9621 | 624 | 9670 | 94 | 88 | 93.6170 | |
| ckim-isaac | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6487 | 95.5751 | 99.8142 | 40.4145 | 9655 | 447 | 9670 | 18 | 11 | 61.1111 | |
| rpoplin-dv42 | INDEL | D1_5 | * | hetalt | 96.7748 | 94.2997 | 99.3834 | 61.0557 | 9661 | 584 | 9671 | 60 | 59 | 98.3333 | |
| mlin-fermikit | SNP | * | map_l125_m1_e0 | homalt | 65.3755 | 57.2079 | 76.2637 | 52.9793 | 9671 | 7234 | 9671 | 3010 | 2851 | 94.7176 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| bgallagher-sentieon | INDEL | D1_5 | * | hetalt | 96.6974 | 93.9971 | 99.5574 | 61.8361 | 9630 | 615 | 9672 | 43 | 42 | 97.6744 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.7416 | 66.9975 | 98.4728 | 66.8746 | 10329 | 5088 | 9672 | 150 | 125 | 83.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2704 | 94.7044 | 99.9793 | 59.1395 | 9675 | 541 | 9675 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.8760 | 89.1186 | 99.1699 | 39.2139 | 3448 | 421 | 9677 | 81 | 70 | 86.4198 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 72.5851 | 97.6063 | 57.7747 | 75.1406 | 9460 | 232 | 9679 | 7074 | 284 | 4.0147 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | * | 48.4647 | 32.0015 | 99.8144 | 91.1697 | 9683 | 20575 | 9681 | 18 | 6 | 33.3333 | |
| ckim-dragen | INDEL | D1_5 | * | hetalt | 96.7193 | 94.0654 | 99.5273 | 61.7567 | 9637 | 608 | 9685 | 46 | 46 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | * | hetalt | 96.9633 | 94.1240 | 99.9794 | 61.2573 | 9643 | 602 | 9686 | 2 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | * | 93.1039 | 87.3962 | 99.6092 | 73.8497 | 9687 | 1397 | 9686 | 38 | 11 | 28.9474 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7268 | 99.6801 | 99.7735 | 67.9777 | 9661 | 31 | 9691 | 22 | 18 | 81.8182 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.4626 | 97.0981 | 99.8660 | 55.9944 | 9804 | 293 | 9692 | 13 | 8 | 61.5385 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.4742 | 91.7900 | 99.4666 | 33.0334 | 9615 | 860 | 9697 | 52 | 46 | 88.4615 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.2941 | 99.0714 | 99.5178 | 62.5456 | 9602 | 90 | 9699 | 47 | 29 | 61.7021 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.1010 | 95.3685 | 92.8667 | 39.9701 | 9925 | 482 | 9699 | 745 | 638 | 85.6376 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e0 | * | 73.9169 | 58.8210 | 99.4361 | 88.9350 | 9699 | 6790 | 9699 | 55 | 13 | 23.6364 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9882 | 96.8323 | 99.1721 | 49.4419 | 9782 | 320 | 9703 | 81 | 32 | 39.5062 | |
| asubramanian-gatk | INDEL | I6_15 | * | het | 98.1049 | 97.0796 | 99.1521 | 59.9730 | 9740 | 293 | 9706 | 83 | 53 | 63.8554 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2654 | 95.0470 | 99.5898 | 58.5927 | 9710 | 506 | 9711 | 40 | 39 | 97.5000 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | * | 91.7958 | 89.0029 | 94.7697 | 85.0160 | 9712 | 1200 | 9712 | 536 | 286 | 53.3582 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3281 | 98.8960 | 97.7666 | 73.6710 | 9585 | 107 | 9718 | 222 | 62 | 27.9279 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | het | 93.2998 | 93.1527 | 93.4473 | 85.9522 | 9727 | 715 | 9726 | 682 | 352 | 51.6129 | |
| hfeng-pmm2 | INDEL | D1_5 | * | hetalt | 97.1704 | 94.5242 | 99.9692 | 63.6326 | 9684 | 561 | 9726 | 3 | 1 | 33.3333 | |
| gduggal-snapplat | SNP | * | map_l150_m1_e0 | homalt | 92.6495 | 86.3745 | 99.9076 | 72.5432 | 9737 | 1536 | 9728 | 9 | 9 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3579 | 95.2232 | 99.5905 | 58.8743 | 9728 | 488 | 9729 | 40 | 39 | 97.5000 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 60.9265 | 84.9007 | 47.5105 | 54.7800 | 9750 | 1734 | 9733 | 10753 | 9871 | 91.7976 | |
| jli-custom | INDEL | I6_15 | * | het | 98.3728 | 97.3787 | 99.3875 | 54.1020 | 9770 | 263 | 9736 | 60 | 34 | 56.6667 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3992 | 95.3113 | 99.5807 | 60.0898 | 9737 | 479 | 9737 | 41 | 40 | 97.5610 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.2993 | 66.3164 | 98.6030 | 66.3016 | 10224 | 5193 | 9740 | 138 | 125 | 90.5797 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | * | 77.8146 | 81.9066 | 74.1121 | 85.6738 | 9855 | 2177 | 9745 | 3404 | 959 | 28.1727 | |
| egarrison-hhga | INDEL | I6_15 | * | het | 97.7387 | 97.1494 | 98.3352 | 52.6628 | 9747 | 286 | 9746 | 165 | 103 | 62.4242 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.2469 | 84.8746 | 98.6537 | 45.5252 | 9747 | 1737 | 9746 | 133 | 101 | 75.9398 | |
| astatham-gatk | SNP | ti | map_l150_m2_e0 | het | 86.0268 | 75.7084 | 99.6015 | 83.8910 | 9752 | 3129 | 9748 | 39 | 19 | 48.7179 | |