PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16801-16850 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | homalt | 35.3029 | 21.4351 | 100.0000 | 91.9163 | 1649 | 6044 | 1649 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | het | 77.1850 | 70.0212 | 85.9817 | 41.0929 | 1649 | 706 | 2067 | 337 | 317 | 94.0653 | |
| gduggal-snapplat | INDEL | D6_15 | HG002complexvar | * | 44.3210 | 31.1015 | 77.0858 | 66.5750 | 1649 | 3653 | 1312 | 390 | 129 | 33.0769 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 87.2890 | 97.6896 | 78.8899 | 75.7087 | 1649 | 39 | 1663 | 445 | 65 | 14.6067 | |
| raldana-dualsentieon | INDEL | I1_5 | map_siren | het | 98.5075 | 98.0369 | 98.9826 | 78.7269 | 1648 | 33 | 1654 | 17 | 1 | 5.8824 | |
| hfeng-pmm1 | INDEL | I1_5 | map_siren | het | 98.8017 | 98.0369 | 99.5786 | 80.1885 | 1648 | 33 | 1654 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 97.2967 | 95.4229 | 99.2455 | 71.3930 | 1647 | 79 | 1710 | 13 | 11 | 84.6154 | |
| gduggal-bwavard | INDEL | I1_5 | map_siren | het | 94.0644 | 97.9179 | 90.5028 | 86.3515 | 1646 | 35 | 1620 | 170 | 113 | 66.4706 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5462 | 99.4562 | 99.6364 | 61.3039 | 1646 | 9 | 1644 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4556 | 99.3958 | 99.5154 | 60.4361 | 1645 | 10 | 1643 | 8 | 5 | 62.5000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4857 | 99.3958 | 99.5758 | 60.5358 | 1645 | 10 | 1643 | 7 | 4 | 57.1429 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | hetalt | 97.3210 | 95.3071 | 99.4220 | 76.8604 | 1645 | 81 | 1892 | 11 | 11 | 100.0000 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | het | 79.4811 | 73.6018 | 86.3811 | 92.1058 | 1645 | 590 | 1795 | 283 | 31 | 10.9541 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.7851 | 78.2485 | 92.5134 | 54.4520 | 1644 | 457 | 1557 | 126 | 122 | 96.8254 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4854 | 99.3353 | 99.6359 | 61.3327 | 1644 | 11 | 1642 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4553 | 99.3353 | 99.5755 | 60.7194 | 1644 | 11 | 1642 | 7 | 4 | 57.1429 | |
| qzeng-custom | INDEL | D16_PLUS | * | homalt | 83.8251 | 97.1040 | 73.7410 | 65.8948 | 1643 | 49 | 1640 | 584 | 105 | 17.9795 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.6612 | 97.3341 | 95.9975 | 47.6081 | 1643 | 45 | 1535 | 64 | 22 | 34.3750 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0894 | 97.2749 | 98.9176 | 66.3428 | 1642 | 46 | 1645 | 18 | 16 | 88.8889 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.1648 | 92.7160 | 99.8800 | 39.9063 | 1642 | 129 | 1665 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | homalt | 96.5862 | 93.8822 | 99.4505 | 88.0158 | 1642 | 107 | 1629 | 9 | 7 | 77.7778 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 28.4923 | 93.0272 | 16.8223 | 79.7480 | 1641 | 123 | 1747 | 8638 | 126 | 1.4587 | |
| ckim-isaac | INDEL | * | map_l100_m1_e0 | het | 83.9386 | 73.4228 | 97.9701 | 85.4069 | 1641 | 594 | 1641 | 34 | 14 | 41.1765 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3640 | 99.1541 | 99.5747 | 61.1334 | 1641 | 14 | 1639 | 7 | 4 | 57.1429 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 77.6220 | 87.0095 | 70.0629 | 67.3332 | 1641 | 245 | 1671 | 714 | 601 | 84.1737 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e0 | * | 84.6007 | 85.6397 | 83.5866 | 84.4811 | 1640 | 275 | 1650 | 324 | 122 | 37.6543 | |
| gduggal-snapvard | INDEL | I1_5 | map_siren | het | 89.5229 | 97.5610 | 82.7085 | 86.5938 | 1640 | 41 | 1765 | 369 | 180 | 48.7805 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.8478 | 91.5179 | 84.4608 | 66.3644 | 1640 | 152 | 1723 | 317 | 119 | 37.5394 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.8534 | 92.9705 | 96.8142 | 85.5904 | 1640 | 124 | 1641 | 54 | 22 | 40.7407 | |
| cchapple-custom | INDEL | I1_5 | map_siren | het | 97.7116 | 97.5610 | 97.8628 | 81.6928 | 1640 | 41 | 1740 | 38 | 12 | 31.5789 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3936 | 99.0937 | 99.6953 | 60.8166 | 1640 | 15 | 1636 | 5 | 3 | 60.0000 | |
| ckim-dragen | INDEL | I1_5 | map_siren | het | 97.4161 | 97.5610 | 97.2716 | 82.6203 | 1640 | 41 | 1640 | 46 | 8 | 17.3913 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6651 | 96.2419 | 97.0920 | 67.8312 | 1639 | 64 | 1636 | 49 | 13 | 26.5306 | |
| qzeng-custom | SNP | * | map_l250_m2_e1 | homalt | 74.8704 | 60.3017 | 98.7211 | 89.3099 | 1639 | 1079 | 1621 | 21 | 20 | 95.2381 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2315 | 88.9794 | 97.9104 | 67.2852 | 1639 | 203 | 1640 | 35 | 28 | 80.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7631 | 98.9728 | 98.5542 | 60.1632 | 1638 | 17 | 1636 | 24 | 21 | 87.5000 | |
| ciseli-custom | INDEL | * | map_l100_m2_e0 | het | 73.2740 | 70.9580 | 75.7464 | 88.9861 | 1637 | 670 | 1649 | 528 | 311 | 58.9015 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.9847 | 92.4337 | 99.8195 | 35.5314 | 1637 | 134 | 1659 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | homalt | 84.5342 | 73.7055 | 99.0926 | 73.0694 | 1637 | 584 | 1638 | 15 | 12 | 80.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_siren | het | 97.1764 | 97.3825 | 96.9713 | 77.3988 | 1637 | 44 | 1889 | 59 | 41 | 69.4915 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e0 | * | 81.6618 | 74.5446 | 90.2813 | 93.3861 | 1637 | 559 | 1765 | 190 | 25 | 13.1579 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1786 | 98.9124 | 99.4462 | 49.9692 | 1637 | 18 | 1616 | 9 | 2 | 22.2222 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.9847 | 92.4337 | 99.8195 | 35.5314 | 1637 | 134 | 1659 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | HG002complexvar | hetalt | 96.4786 | 94.7856 | 98.2332 | 69.9256 | 1636 | 90 | 1668 | 30 | 30 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 90.4376 | 83.7686 | 98.2603 | 35.1614 | 1636 | 317 | 1638 | 29 | 15 | 51.7241 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.6913 | 86.7444 | 80.8458 | 71.7974 | 1636 | 250 | 1625 | 385 | 278 | 72.2078 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6126 | 98.8520 | 98.3745 | 60.9084 | 1636 | 19 | 1634 | 27 | 12 | 44.4444 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.0474 | 96.9194 | 91.3406 | 62.4853 | 1636 | 52 | 1751 | 166 | 130 | 78.3133 | |
| anovak-vg | INDEL | * | map_l125_m2_e0 | * | 72.8494 | 74.4991 | 71.2712 | 87.8407 | 1636 | 560 | 1682 | 678 | 383 | 56.4897 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2109 | 98.7915 | 99.6339 | 57.3510 | 1635 | 20 | 1633 | 6 | 3 | 50.0000 | |