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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69301-69350 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1514 | 90.4452 | 98.1743 | 66.8941 | 1666 | 176 | 1667 | 31 | 27 | 87.0968 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002complexvar | hetalt | 98.1752 | 96.5238 | 99.8841 | 71.0548 | 1666 | 60 | 1724 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | homalt | 98.2891 | 98.4634 | 98.1154 | 70.9396 | 1666 | 26 | 1666 | 32 | 25 | 78.1250 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6857 | 97.8861 | 99.4985 | 72.2979 | 1667 | 36 | 1984 | 10 | 2 | 20.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3741 | 98.7559 | 100.0000 | 56.8481 | 1667 | 21 | 1673 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1384 | 90.5537 | 98.0186 | 60.1764 | 1668 | 174 | 1682 | 34 | 29 | 85.2941 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7388 | 98.0035 | 99.4851 | 62.3094 | 1669 | 34 | 2705 | 14 | 11 | 78.5714 | |
| gduggal-bwaplat | INDEL | * | map_l100_m2_e0 | het | 83.4500 | 72.3450 | 98.5824 | 93.3707 | 1669 | 638 | 1669 | 24 | 8 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.2389 | 96.5856 | 93.9292 | 78.7201 | 1669 | 59 | 1671 | 108 | 103 | 95.3704 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 33.6989 | 27.4371 | 43.6639 | 50.1227 | 1669 | 4414 | 2219 | 2863 | 2250 | 78.5889 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0553 | 90.6080 | 97.7752 | 66.9888 | 1669 | 173 | 1670 | 38 | 32 | 84.2105 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0071 | 94.2405 | 99.9409 | 41.4127 | 1669 | 102 | 1691 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | het | 96.9264 | 96.5856 | 97.2696 | 68.4720 | 1669 | 59 | 1710 | 48 | 21 | 43.7500 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1890 | 91.6575 | 99.0035 | 38.6331 | 1670 | 152 | 1689 | 17 | 16 | 94.1176 | |
| ckim-isaac | SNP | tv | map_l150_m1_e0 | homalt | 59.4623 | 42.3213 | 99.9402 | 68.6492 | 1670 | 2276 | 1670 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1912 | 90.6623 | 98.0059 | 66.8030 | 1670 | 172 | 1671 | 34 | 28 | 82.3529 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4640 | 98.9336 | 100.0000 | 64.4882 | 1670 | 18 | 1679 | 0 | 0 | ||
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.7991 | 95.5378 | 98.0941 | 72.6859 | 1670 | 78 | 1647 | 32 | 12 | 37.5000 | |
| jpowers-varprowl | SNP | tv | map_l250_m1_e0 | het | 92.3970 | 93.5087 | 91.3115 | 92.1131 | 1671 | 116 | 1671 | 159 | 31 | 19.4969 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6415 | 98.1210 | 99.1677 | 69.0182 | 1671 | 32 | 1668 | 14 | 0 | 0.0000 | |
| anovak-vg | SNP | tv | map_l250_m2_e0 | het | 71.3723 | 86.1340 | 60.9301 | 91.9101 | 1671 | 269 | 1664 | 1067 | 256 | 23.9925 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.4349 | 24.2003 | 59.6699 | 64.4061 | 1672 | 5237 | 1663 | 1124 | 1036 | 92.1708 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 75.1306 | 62.9044 | 93.2559 | 77.8634 | 1672 | 986 | 1687 | 122 | 15 | 12.2951 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5238 | 99.0521 | 100.0000 | 59.3712 | 1672 | 16 | 1680 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0710 | 94.4664 | 99.8233 | 40.6709 | 1673 | 98 | 1695 | 3 | 3 | 100.0000 | |
| ckim-isaac | SNP | tv | func_cds | homalt | 99.0820 | 98.1808 | 100.0000 | 21.0849 | 1673 | 31 | 1673 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 82.4180 | 70.7101 | 98.7723 | 34.9310 | 1673 | 693 | 1770 | 22 | 18 | 81.8182 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002compoundhet | het | 90.2551 | 96.8171 | 84.5262 | 76.1853 | 1673 | 55 | 1677 | 307 | 300 | 97.7199 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 60.0589 | 91.9736 | 44.5872 | 75.8345 | 1673 | 146 | 1701 | 2114 | 1899 | 89.8297 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 60.0589 | 91.9736 | 44.5872 | 75.8345 | 1673 | 146 | 1701 | 2114 | 1899 | 89.8297 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.6353 | 95.7094 | 99.6403 | 58.7026 | 1673 | 75 | 1662 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002complexvar | hetalt | 98.0883 | 96.9293 | 99.2754 | 77.2008 | 1673 | 53 | 1918 | 14 | 14 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4642 | 99.1114 | 99.8195 | 47.8833 | 1673 | 15 | 1659 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1287 | 94.5229 | 99.8822 | 39.6374 | 1674 | 97 | 1696 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 81.2006 | 94.8980 | 70.9586 | 87.8472 | 1674 | 90 | 1251 | 512 | 45 | 8.7891 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 82.4503 | 70.7523 | 98.7826 | 36.8825 | 1674 | 692 | 568 | 7 | 7 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0142 | 90.8795 | 95.2517 | 63.6364 | 1674 | 168 | 1665 | 83 | 41 | 49.3976 | |
| jlack-gatk | INDEL | D16_PLUS | * | homalt | 98.8194 | 98.9362 | 98.7028 | 69.0115 | 1674 | 18 | 1674 | 22 | 15 | 68.1818 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2976 | 98.3558 | 98.2394 | 68.7282 | 1675 | 28 | 1674 | 30 | 5 | 16.6667 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2303 | 99.2299 | 99.2308 | 68.4878 | 1675 | 13 | 1677 | 13 | 7 | 53.8462 | |
| hfeng-pmm1 | INDEL | D16_PLUS | * | homalt | 99.2597 | 99.0544 | 99.4659 | 65.7799 | 1676 | 16 | 1676 | 9 | 4 | 44.4444 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | homalt | 99.0257 | 99.1135 | 98.9381 | 67.4789 | 1677 | 15 | 1677 | 18 | 12 | 66.6667 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9669 | 98.4733 | 99.4656 | 72.6845 | 1677 | 26 | 1675 | 9 | 2 | 22.2222 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.0254 | 98.4733 | 99.5838 | 72.6059 | 1677 | 26 | 1675 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1922 | 94.7487 | 99.7651 | 35.9534 | 1678 | 93 | 1699 | 4 | 4 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | * | homalt | 99.3781 | 99.1726 | 99.5846 | 66.6072 | 1678 | 14 | 1678 | 7 | 4 | 57.1429 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 60.3322 | 92.2485 | 44.8239 | 74.0840 | 1678 | 141 | 1693 | 2084 | 2043 | 98.0326 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 60.3322 | 92.2485 | 44.8239 | 74.0840 | 1678 | 141 | 1693 | 2084 | 2043 | 98.0326 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6736 | 99.4668 | 99.8812 | 64.0938 | 1679 | 9 | 1682 | 2 | 2 | 100.0000 | |