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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78801-78850 / 86044 show all | |||||||||||||||
| 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 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7314 | 99.6182 | 99.8449 | 68.2587 | 9655 | 37 | 9655 | 15 | 13 | 86.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | hetalt | 97.1670 | 94.5086 | 99.9793 | 58.9151 | 9655 | 561 | 9655 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 92.5840 | 86.9698 | 98.9730 | 26.4574 | 9658 | 1447 | 9926 | 103 | 93 | 90.2913 | |
| cchapple-custom | INDEL | D1_5 | HG002compoundhet | hetalt | 0.0000 | 94.5380 | 0.0000 | 0.0000 | 9658 | 558 | 0 | 0 | 0 | ||
| jli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7367 | 99.6698 | 99.8037 | 67.8161 | 9660 | 32 | 9660 | 19 | 12 | 63.1579 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7268 | 99.6801 | 99.7735 | 67.9777 | 9661 | 31 | 9691 | 22 | 18 | 81.8182 | |
| rpoplin-dv42 | INDEL | D1_5 | * | hetalt | 96.7748 | 94.2997 | 99.3834 | 61.0557 | 9661 | 584 | 9671 | 60 | 59 | 98.3333 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7162 | 99.7111 | 99.7214 | 67.6049 | 9664 | 28 | 9664 | 27 | 20 | 74.0741 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7677 | 99.7111 | 99.8244 | 68.3834 | 9664 | 28 | 9664 | 17 | 12 | 70.5882 | |
| anovak-vg | SNP | tv | map_l125_m2_e1 | het | 77.4408 | 91.5759 | 67.0858 | 78.0971 | 9664 | 889 | 9657 | 4738 | 1048 | 22.1190 | |
| 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 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.4171 | 52.9438 | 60.3781 | 34.2544 | 9667 | 8592 | 10315 | 6769 | 5257 | 77.6629 | |
| mlin-fermikit | SNP | * | map_l125_m1_e0 | homalt | 65.3755 | 57.2079 | 76.2637 | 52.9793 | 9671 | 7234 | 9671 | 3010 | 2851 | 94.7176 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.7011 | 87.0959 | 96.8206 | 45.2421 | 9672 | 1433 | 2223 | 73 | 72 | 98.6301 | |
| 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 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2704 | 94.7044 | 99.9793 | 59.1395 | 9675 | 541 | 9675 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | * | hetalt | 96.8514 | 94.4363 | 99.3932 | 69.7439 | 9675 | 570 | 9828 | 60 | 59 | 98.3333 | |
| cchapple-custom | INDEL | D1_5 | * | hetalt | 0.0000 | 94.5046 | 0.0000 | 0.0000 | 9682 | 563 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | * | 48.4647 | 32.0015 | 99.8144 | 91.1697 | 9683 | 20575 | 9681 | 18 | 6 | 33.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | * | hetalt | 97.1704 | 94.5242 | 99.9692 | 63.6326 | 9684 | 561 | 9726 | 3 | 1 | 33.3333 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | * | 93.1039 | 87.3962 | 99.6092 | 73.8497 | 9687 | 1397 | 9686 | 38 | 11 | 28.9474 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e0 | * | 73.9169 | 58.8210 | 99.4361 | 88.9350 | 9699 | 6790 | 9699 | 55 | 13 | 23.6364 | |
| hfeng-pmm1 | INDEL | D1_5 | * | hetalt | 97.2784 | 94.7194 | 99.9795 | 63.7385 | 9704 | 541 | 9748 | 2 | 1 | 50.0000 | |
| 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 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | het | 93.2998 | 93.1527 | 93.4473 | 85.9522 | 9727 | 715 | 9726 | 682 | 352 | 51.6129 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3579 | 95.2232 | 99.5905 | 58.8743 | 9728 | 488 | 9729 | 40 | 39 | 97.5000 | |
| astatham-gatk | INDEL | D1_5 | * | hetalt | 97.2343 | 95.0220 | 99.5520 | 63.2355 | 9735 | 510 | 9778 | 44 | 43 | 97.7273 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.1234 | 70.6347 | 84.9247 | 50.6689 | 9737 | 4048 | 9864 | 1751 | 1570 | 89.6630 | |
| gduggal-snapplat | SNP | * | map_l150_m1_e0 | homalt | 92.6495 | 86.3745 | 99.9076 | 72.5432 | 9737 | 1536 | 9728 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3992 | 95.3113 | 99.5807 | 60.0898 | 9737 | 479 | 9737 | 41 | 40 | 97.5610 | |
| asubramanian-gatk | INDEL | I6_15 | * | het | 98.1049 | 97.0796 | 99.1521 | 59.9730 | 9740 | 293 | 9706 | 83 | 53 | 63.8554 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.1719 | 93.0119 | 99.5542 | 28.6148 | 9743 | 732 | 9825 | 44 | 44 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.1844 | 90.2139 | 96.3573 | 74.4602 | 9744 | 1057 | 9893 | 374 | 179 | 47.8610 | |
| 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 | |
| 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 | |
| astatham-gatk | SNP | ti | map_l150_m2_e0 | het | 86.0268 | 75.7084 | 99.6015 | 83.8910 | 9752 | 3129 | 9748 | 39 | 19 | 48.7179 | |
| dgrover-gatk | INDEL | D1_5 | * | hetalt | 97.3217 | 95.1977 | 99.5427 | 63.5299 | 9753 | 492 | 9795 | 45 | 43 | 95.5556 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0218 | 96.6030 | 99.4830 | 58.8566 | 9754 | 343 | 9622 | 50 | 26 | 52.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | * | het | 97.5570 | 97.2192 | 97.8973 | 54.2636 | 9754 | 279 | 9777 | 210 | 127 | 60.4762 | |
| rpoplin-dv42 | INDEL | I6_15 | * | het | 96.6553 | 97.2291 | 96.0883 | 56.6301 | 9755 | 278 | 9752 | 397 | 383 | 96.4736 | |
| jli-custom | INDEL | D1_5 | * | hetalt | 97.3277 | 95.2367 | 99.5126 | 64.3126 | 9757 | 488 | 9801 | 48 | 46 | 95.8333 | |
| astatham-gatk | SNP | tv | map_l150_m2_e1 | * | 91.6416 | 84.8374 | 99.6324 | 80.3148 | 9758 | 1744 | 9756 | 36 | 13 | 36.1111 | |
| ckim-vqsr | SNP | ti | map_l150_m1_e0 | * | 65.9997 | 49.5333 | 98.8657 | 90.7313 | 9764 | 9948 | 9762 | 112 | 2 | 1.7857 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2751 | 93.2220 | 99.5351 | 28.3303 | 9765 | 710 | 9848 | 46 | 46 | 100.0000 | |