PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22301-22350 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.9354 | 99.0237 | 96.8707 | 88.7477 | 710 | 7 | 712 | 23 | 3 | 13.0435 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.9533 | 95.6873 | 98.2533 | 72.2760 | 710 | 32 | 675 | 12 | 7 | 58.3333 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.3472 | 95.8165 | 96.8839 | 75.3835 | 710 | 31 | 684 | 22 | 19 | 86.3636 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.9602 | 93.1759 | 92.7455 | 64.5850 | 710 | 52 | 831 | 65 | 47 | 72.3077 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 29.6692 | 20.3322 | 54.8638 | 69.9063 | 710 | 2782 | 705 | 580 | 561 | 96.7241 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.1086 | 93.1759 | 97.1233 | 60.7948 | 710 | 52 | 709 | 21 | 17 | 80.9524 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e0 | homalt | 96.2060 | 93.0537 | 99.5792 | 87.7027 | 710 | 53 | 710 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2794 | 95.8165 | 96.7468 | 75.0088 | 710 | 31 | 684 | 23 | 20 | 86.9565 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m1_e0 | * | 98.2056 | 99.0237 | 97.4008 | 89.1607 | 710 | 7 | 712 | 19 | 4 | 21.0526 | |
| gduggal-bwafb | INDEL | D1_5 | map_l125_m1_e0 | het | 97.3253 | 97.6584 | 96.9945 | 85.1972 | 709 | 17 | 710 | 22 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.6799 | 98.8842 | 98.4765 | 86.4946 | 709 | 8 | 711 | 11 | 3 | 27.2727 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7162 | 98.8842 | 96.5753 | 51.3333 | 709 | 8 | 705 | 25 | 23 | 92.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.3026 | 95.6815 | 62.0803 | 56.2366 | 709 | 32 | 758 | 463 | 445 | 96.1123 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2746 | 95.6815 | 96.8750 | 75.2809 | 709 | 32 | 682 | 22 | 19 | 86.3636 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 86.5177 | 76.8147 | 99.0264 | 30.1942 | 709 | 214 | 712 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.2193 | 94.2819 | 94.1567 | 58.3748 | 709 | 43 | 709 | 44 | 28 | 63.6364 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8005 | 98.3333 | 99.2722 | 82.8678 | 708 | 12 | 682 | 5 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.9551 | 95.5466 | 98.4058 | 74.9000 | 708 | 33 | 679 | 11 | 8 | 72.7273 | |
| ciseli-custom | SNP | tv | map_l250_m2_e0 | homalt | 78.7009 | 75.5603 | 82.1138 | 88.5597 | 708 | 229 | 707 | 154 | 111 | 72.0779 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.3470 | 98.3333 | 98.3607 | 87.6954 | 708 | 12 | 720 | 12 | 6 | 50.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.3644 | 83.1962 | 98.8842 | 87.6910 | 708 | 143 | 709 | 8 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.8992 | 89.1688 | 99.1597 | 88.4671 | 708 | 86 | 708 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8601 | 97.5207 | 98.2019 | 84.3405 | 708 | 18 | 710 | 13 | 2 | 15.3846 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7427 | 95.4178 | 98.1050 | 71.1886 | 708 | 34 | 673 | 13 | 8 | 61.5385 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 95.2376 | 97.3829 | 93.1848 | 85.5574 | 707 | 19 | 711 | 52 | 4 | 7.6923 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m1_e0 | het | 96.3840 | 97.3829 | 95.4054 | 88.2297 | 707 | 19 | 706 | 34 | 3 | 8.8235 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 92.6175 | 98.6053 | 87.3153 | 91.1605 | 707 | 10 | 709 | 103 | 4 | 3.8835 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.6340 | 88.9169 | 98.8796 | 87.9595 | 706 | 88 | 706 | 8 | 3 | 37.5000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m1_e0 | het | 97.5138 | 97.2452 | 97.7839 | 84.6774 | 706 | 20 | 706 | 16 | 4 | 25.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1967 | 95.2767 | 97.1347 | 75.0892 | 706 | 35 | 678 | 20 | 18 | 90.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.9148 | 73.4651 | 97.8302 | 47.7704 | 706 | 255 | 2074 | 46 | 36 | 78.2609 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 94.8406 | 98.4658 | 91.4729 | 91.9576 | 706 | 11 | 708 | 66 | 5 | 7.5758 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | het | 60.6574 | 83.0588 | 47.7728 | 63.6646 | 706 | 144 | 5148 | 5628 | 4753 | 84.4527 | |
| jli-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 98.3275 | 98.3264 | 98.3287 | 87.8326 | 705 | 12 | 706 | 12 | 4 | 33.3333 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.2350 | 95.0135 | 97.4884 | 66.2374 | 705 | 37 | 1048 | 27 | 19 | 70.3704 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.5315 | 91.2031 | 80.5239 | 75.2676 | 705 | 68 | 707 | 171 | 82 | 47.9532 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 98.1921 | 98.3264 | 98.0583 | 89.8594 | 705 | 12 | 707 | 14 | 3 | 21.4286 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 63.9710 | 53.3687 | 79.8301 | 38.1774 | 705 | 616 | 2632 | 665 | 660 | 99.2481 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 90.5470 | 96.0437 | 85.6454 | 67.9552 | 704 | 29 | 710 | 119 | 13 | 10.9244 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.8778 | 96.0437 | 91.8075 | 72.7305 | 704 | 29 | 706 | 63 | 44 | 69.8413 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8070 | 98.1869 | 99.4350 | 56.0248 | 704 | 13 | 704 | 4 | 3 | 75.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.1894 | 98.1869 | 98.1919 | 88.2765 | 704 | 13 | 706 | 13 | 6 | 46.1538 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1185 | 98.1869 | 98.0501 | 57.4392 | 704 | 13 | 704 | 14 | 12 | 85.7143 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 81.6457 | 73.4098 | 91.9631 | 60.0526 | 704 | 255 | 698 | 61 | 38 | 62.2951 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.3721 | 98.1869 | 96.5706 | 61.2646 | 704 | 13 | 704 | 25 | 22 | 88.0000 | |
| asubramanian-gatk | SNP | ti | map_l250_m2_e0 | het | 35.4961 | 21.6042 | 99.4342 | 98.4524 | 703 | 2551 | 703 | 4 | 1 | 25.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 77.5652 | 94.8718 | 65.5987 | 55.1946 | 703 | 38 | 778 | 408 | 397 | 97.3039 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.3714 | 93.4840 | 99.4429 | 53.4069 | 703 | 49 | 714 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 95.1391 | 98.0474 | 92.3984 | 92.1292 | 703 | 14 | 705 | 58 | 5 | 8.6207 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 39.3470 | 36.3683 | 42.8571 | 67.0539 | 703 | 1230 | 705 | 940 | 934 | 99.3617 | |