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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12351-12400 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9129 | 98.0590 | 99.7817 | 66.6211 | 3688 | 73 | 3657 | 8 | 5 | 62.5000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.5286 | 73.7548 | 88.6726 | 69.8081 | 3687 | 1312 | 3781 | 483 | 366 | 75.7764 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.5286 | 73.7548 | 88.6726 | 69.8081 | 3687 | 1312 | 3781 | 483 | 366 | 75.7764 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6703 | 94.6112 | 98.8210 | 55.5926 | 3687 | 210 | 3688 | 44 | 37 | 84.0909 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4170 | 92.5452 | 96.3660 | 61.9062 | 3687 | 297 | 3686 | 139 | 128 | 92.0863 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 81.6855 | 91.2376 | 73.9439 | 67.5049 | 3686 | 354 | 4061 | 1431 | 1308 | 91.4046 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 80.6539 | 91.2376 | 72.2705 | 67.9116 | 3686 | 354 | 3912 | 1501 | 1377 | 91.7388 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | * | 98.4239 | 98.0564 | 98.7942 | 84.0281 | 3683 | 73 | 3687 | 45 | 15 | 33.3333 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.1312 | 95.1667 | 97.1154 | 62.9013 | 3682 | 187 | 3636 | 108 | 104 | 96.2963 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6996 | 97.7430 | 99.6751 | 54.6036 | 3681 | 85 | 3681 | 12 | 7 | 58.3333 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6996 | 97.7430 | 99.6751 | 54.6036 | 3681 | 85 | 3681 | 12 | 7 | 58.3333 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 84.8287 | 79.2124 | 91.3021 | 39.5276 | 3681 | 966 | 1753 | 167 | 81 | 48.5030 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e1 | * | 96.9607 | 97.9766 | 95.9656 | 89.2269 | 3680 | 76 | 3687 | 155 | 21 | 13.5484 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.3918 | 92.3695 | 96.5046 | 61.7780 | 3680 | 304 | 3672 | 133 | 128 | 96.2406 | |
| mlin-fermikit | SNP | ti | map_l150_m1_e0 | homalt | 60.2226 | 50.2115 | 75.2198 | 56.9340 | 3679 | 3648 | 3679 | 1212 | 1145 | 94.4719 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.5573 | 95.0633 | 84.6541 | 45.2951 | 3678 | 191 | 10586 | 1919 | 912 | 47.5248 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4850 | 94.3803 | 98.6856 | 56.4231 | 3678 | 219 | 3679 | 49 | 42 | 85.7143 | |
| jlack-gatk | INDEL | * | map_l100_m2_e1 | * | 95.3410 | 97.9233 | 92.8914 | 88.4293 | 3678 | 78 | 3685 | 282 | 30 | 10.6383 | |
| gduggal-bwaplat | INDEL | I16_PLUS | * | * | 72.4372 | 57.6760 | 97.3531 | 65.4535 | 3678 | 2699 | 3678 | 100 | 83 | 83.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6488 | 94.3546 | 99.0574 | 55.6339 | 3677 | 220 | 3678 | 35 | 28 | 80.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6703 | 97.6102 | 99.7536 | 44.9684 | 3676 | 90 | 3644 | 9 | 7 | 77.7778 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6703 | 97.6102 | 99.7536 | 44.9684 | 3676 | 90 | 3644 | 9 | 7 | 77.7778 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7497 | 97.7134 | 99.8083 | 64.4325 | 3675 | 86 | 3644 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7497 | 97.7134 | 99.8083 | 64.4325 | 3675 | 86 | 3644 | 7 | 4 | 57.1429 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.0217 | 94.2549 | 97.8560 | 49.0716 | 3675 | 224 | 8535 | 187 | 123 | 65.7754 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.1163 | 94.9599 | 95.2731 | 65.4635 | 3674 | 195 | 3628 | 180 | 177 | 98.3333 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.9582 | 94.9341 | 97.0045 | 63.7624 | 3673 | 196 | 3627 | 112 | 107 | 95.5357 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1325 | 96.5309 | 99.7881 | 46.4918 | 3673 | 132 | 3767 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.8332 | 90.8911 | 96.9721 | 73.4710 | 3672 | 368 | 3651 | 114 | 38 | 33.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.8442 | 97.6336 | 96.0674 | 58.0189 | 3672 | 89 | 5814 | 238 | 216 | 90.7563 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8442 | 97.6336 | 96.0674 | 58.0189 | 3672 | 89 | 5814 | 238 | 216 | 90.7563 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | homalt | 48.4929 | 32.0126 | 99.9455 | 86.0864 | 3668 | 7790 | 3668 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.0742 | 88.4708 | 95.9835 | 76.8106 | 3668 | 478 | 3728 | 156 | 82 | 52.5641 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.9408 | 94.7790 | 97.1314 | 64.3062 | 3667 | 202 | 3623 | 107 | 103 | 96.2617 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.0957 | 93.3062 | 96.9553 | 51.5459 | 3666 | 263 | 3662 | 115 | 107 | 93.0435 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3724 | 94.0724 | 98.7877 | 56.0658 | 3666 | 231 | 3667 | 45 | 39 | 86.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8638 | 100.0000 | 99.7280 | 50.5648 | 3666 | 0 | 3666 | 10 | 10 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9319 | 100.0000 | 99.8638 | 51.2807 | 3666 | 0 | 3666 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8366 | 99.9727 | 99.7008 | 51.3048 | 3665 | 1 | 3665 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9319 | 99.9727 | 99.8911 | 50.1493 | 3665 | 1 | 3668 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8910 | 99.9727 | 99.8094 | 51.1312 | 3665 | 1 | 3665 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9182 | 99.9727 | 99.8638 | 51.1578 | 3665 | 1 | 3665 | 5 | 5 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9318 | 99.9727 | 99.8910 | 51.2943 | 3665 | 1 | 3665 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | homalt | 97.1883 | 95.2678 | 99.1879 | 78.6252 | 3664 | 182 | 3664 | 30 | 6 | 20.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9182 | 99.9454 | 99.8909 | 51.3011 | 3664 | 2 | 3664 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8365 | 99.9182 | 99.7549 | 50.2169 | 3663 | 3 | 3663 | 9 | 9 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8909 | 99.8909 | 99.8909 | 48.7917 | 3662 | 4 | 3662 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e1 | * | 97.9158 | 97.4973 | 98.3378 | 98.2252 | 3662 | 94 | 3668 | 62 | 29 | 46.7742 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e1 | * | 98.1906 | 97.4707 | 98.9213 | 83.6789 | 3661 | 95 | 3668 | 40 | 9 | 22.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8228 | 99.8636 | 99.7820 | 48.9282 | 3661 | 5 | 3661 | 8 | 8 | 100.0000 | |