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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21701-21750 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m2_e1 | het | 97.1585 | 95.0617 | 99.3498 | 76.6474 | 770 | 40 | 764 | 5 | 0 | 0.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.9070 | 97.9644 | 99.8679 | 59.9259 | 770 | 16 | 756 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6764 | 99.6119 | 99.7409 | 78.6563 | 770 | 3 | 770 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6764 | 99.6119 | 99.7409 | 78.6681 | 770 | 3 | 770 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6764 | 99.6119 | 99.7409 | 78.6563 | 770 | 3 | 770 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e1 | * | 79.3602 | 66.4650 | 98.4635 | 87.9214 | 769 | 388 | 769 | 12 | 6 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6114 | 99.4825 | 99.7406 | 77.9336 | 769 | 4 | 769 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | homalt | 99.2258 | 99.3540 | 99.0979 | 85.7143 | 769 | 5 | 769 | 7 | 4 | 57.1429 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5839 | 97.8372 | 99.3421 | 60.4167 | 769 | 17 | 755 | 5 | 2 | 40.0000 | |
| gduggal-snapvard | INDEL | * | segdup | homalt | 87.9737 | 80.1042 | 97.5580 | 91.2900 | 769 | 191 | 799 | 20 | 20 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l125_m2_e1 | homalt | 99.2899 | 99.3540 | 99.2258 | 85.3746 | 769 | 5 | 769 | 6 | 3 | 50.0000 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e1 | homalt | 54.4040 | 43.3973 | 72.8910 | 76.6541 | 769 | 1003 | 769 | 286 | 261 | 91.2587 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7406 | 99.4825 | 100.0000 | 76.8652 | 769 | 4 | 769 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6112 | 99.4825 | 99.7403 | 78.0188 | 769 | 4 | 768 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6114 | 99.4825 | 99.7406 | 76.8607 | 769 | 4 | 769 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.9701 | 57.8195 | 95.2912 | 87.3887 | 769 | 561 | 769 | 38 | 33 | 86.8421 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.5948 | 89.9415 | 95.4094 | 77.7594 | 769 | 86 | 769 | 37 | 3 | 8.1081 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 46.3721 | 79.4421 | 32.7422 | 66.7816 | 769 | 199 | 757 | 1555 | 1454 | 93.5048 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9308 | 89.1078 | 90.7692 | 60.4401 | 769 | 94 | 767 | 78 | 76 | 97.4359 | |
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e1 | het | 96.7959 | 94.9383 | 98.7277 | 84.0114 | 769 | 41 | 776 | 10 | 1 | 10.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m2_e1 | * | 98.6531 | 98.7147 | 98.5915 | 87.1946 | 768 | 10 | 770 | 11 | 3 | 27.2727 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | homalt | 99.2248 | 99.2248 | 99.2248 | 87.3859 | 768 | 6 | 768 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 85.9498 | 90.2468 | 82.0433 | 90.3390 | 768 | 83 | 795 | 174 | 11 | 6.3218 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4518 | 99.3532 | 99.5506 | 74.6799 | 768 | 5 | 886 | 4 | 2 | 50.0000 | |
| ckim-gatk | INDEL | * | map_l125_m2_e1 | homalt | 99.1607 | 99.2248 | 99.0968 | 87.3717 | 768 | 6 | 768 | 7 | 4 | 57.1429 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 92.9289 | 98.5861 | 87.8857 | 91.6492 | 767 | 11 | 769 | 106 | 5 | 4.7170 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4581 | 99.2238 | 97.7041 | 73.3786 | 767 | 6 | 766 | 18 | 3 | 16.6667 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.5880 | 92.9697 | 90.2468 | 68.7592 | 767 | 58 | 768 | 83 | 69 | 83.1325 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.5880 | 92.9697 | 90.2468 | 68.7592 | 767 | 58 | 768 | 83 | 69 | 83.1325 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 56.7831 | 40.6681 | 94.0520 | 68.9496 | 767 | 1119 | 759 | 48 | 45 | 93.7500 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e1 | homalt | 99.0968 | 99.0956 | 99.0979 | 85.1341 | 767 | 7 | 769 | 7 | 3 | 42.8571 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.6732 | 97.8316 | 99.5294 | 30.3849 | 767 | 17 | 846 | 4 | 4 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8084 | 91.7464 | 98.0818 | 67.8189 | 767 | 69 | 767 | 15 | 13 | 86.6667 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8070 | 92.9697 | 90.6730 | 69.1101 | 767 | 58 | 768 | 79 | 66 | 83.5443 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8070 | 92.9697 | 90.6730 | 69.1101 | 767 | 58 | 768 | 79 | 66 | 83.5443 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m2_e1 | het | 96.5415 | 94.6914 | 98.4655 | 90.6122 | 767 | 43 | 770 | 12 | 1 | 8.3333 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.3614 | 64.8603 | 84.4271 | 38.2979 | 766 | 415 | 759 | 140 | 137 | 97.8571 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.9025 | 98.9664 | 98.8387 | 87.1943 | 766 | 8 | 766 | 9 | 4 | 44.4444 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | homalt | 98.9664 | 98.9664 | 98.9664 | 85.9247 | 766 | 8 | 766 | 8 | 6 | 75.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.0477 | 98.4576 | 91.8660 | 92.3764 | 766 | 12 | 768 | 68 | 6 | 8.8235 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 96.5400 | 96.5952 | 96.4848 | 85.2941 | 766 | 27 | 796 | 29 | 8 | 27.5862 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 85.4625 | 82.9902 | 88.0866 | 50.9735 | 766 | 157 | 244 | 33 | 29 | 87.8788 | |
| jli-custom | INDEL | I1_5 | map_l100_m1_e0 | het | 99.1589 | 98.5843 | 99.7403 | 82.0596 | 766 | 11 | 768 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | homalt | 99.0304 | 98.9664 | 99.0944 | 86.2407 | 766 | 8 | 766 | 7 | 6 | 85.7143 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 68.3405 | 57.5940 | 84.0173 | 50.8840 | 766 | 564 | 1167 | 222 | 125 | 56.3063 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m1_e0 | het | 89.7380 | 98.4556 | 82.4387 | 88.3144 | 765 | 12 | 1075 | 229 | 105 | 45.8515 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2053 | 98.3290 | 98.0818 | 90.2929 | 765 | 13 | 767 | 15 | 4 | 26.6667 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5825 | 98.4556 | 98.7097 | 83.9478 | 765 | 12 | 765 | 10 | 1 | 10.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6752 | 98.9651 | 98.3871 | 77.1459 | 765 | 8 | 854 | 14 | 3 | 21.4286 | |