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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8501-8550 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8274 | 91.5346 | 92.1220 | 61.6285 | 2022 | 187 | 2023 | 173 | 118 | 68.2081 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.5847 | 96.7922 | 79.9769 | 63.6211 | 694 | 23 | 691 | 173 | 173 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.5772 | 91.4508 | 67.3585 | 91.9490 | 353 | 33 | 357 | 173 | 20 | 11.5607 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 69.7822 | 60.7755 | 81.9227 | 56.9113 | 1630 | 1052 | 784 | 173 | 149 | 86.1272 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 94.2215 | 99.4737 | 89.4961 | 39.1577 | 1323 | 7 | 1474 | 173 | 173 | 100.0000 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e0 | het | 90.1781 | 97.7925 | 83.6638 | 93.5954 | 886 | 20 | 886 | 173 | 49 | 28.3237 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 83.9976 | 93.6170 | 76.1708 | 68.1299 | 572 | 39 | 553 | 173 | 168 | 97.1098 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 77.4939 | 68.7532 | 88.7808 | 66.4783 | 1329 | 604 | 1369 | 173 | 122 | 70.5202 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.2748 | 93.5927 | 70.2749 | 53.8827 | 409 | 28 | 409 | 173 | 173 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5560 | 97.8984 | 93.3230 | 31.2914 | 559 | 12 | 2418 | 173 | 165 | 95.3757 | |
| jlack-gatk | INDEL | * | map_l100_m0_e0 | * | 93.6372 | 97.7607 | 89.8474 | 89.5254 | 1528 | 35 | 1531 | 173 | 12 | 6.9364 | |
| hfeng-pmm2 | SNP | ti | map_l125_m2_e0 | het | 99.1742 | 99.2636 | 99.0849 | 75.4183 | 18737 | 139 | 18733 | 173 | 14 | 8.0925 | |
| hfeng-pmm2 | SNP | tv | map_siren | * | 99.6626 | 99.6995 | 99.6257 | 59.0414 | 45792 | 138 | 45784 | 172 | 23 | 13.3721 | |
| jlack-gatk | SNP | ti | map_l250_m0_e0 | het | 90.4950 | 97.8587 | 84.1621 | 96.2262 | 914 | 20 | 914 | 172 | 18 | 10.4651 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e1 | * | 99.5664 | 99.4979 | 99.6351 | 71.1769 | 46965 | 237 | 46959 | 172 | 26 | 15.1163 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 29.8168 | 22.2403 | 45.2229 | 54.6898 | 137 | 479 | 142 | 172 | 160 | 93.0233 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.4879 | 99.7997 | 89.7129 | 85.3011 | 1495 | 3 | 1500 | 172 | 100 | 58.1395 | |
| jli-custom | SNP | * | map_l100_m0_e0 | * | 99.1662 | 98.8612 | 99.4730 | 63.5990 | 32467 | 374 | 32467 | 172 | 59 | 34.3023 | |
| jli-custom | SNP | * | map_l150_m2_e1 | * | 99.1717 | 98.8823 | 99.4628 | 73.1735 | 31850 | 360 | 31847 | 172 | 59 | 34.3023 | |
| jli-custom | SNP | * | segdup | het | 99.4076 | 99.8037 | 99.0146 | 89.8653 | 17283 | 34 | 17283 | 172 | 2 | 1.1628 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 43.8095 | 30.0844 | 80.5650 | 56.8082 | 713 | 1657 | 713 | 172 | 158 | 91.8605 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3847 | 99.1729 | 95.6599 | 68.7214 | 3837 | 32 | 3791 | 172 | 166 | 96.5116 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | het | 79.5099 | 74.9211 | 84.6975 | 89.9093 | 950 | 318 | 952 | 172 | 40 | 23.2558 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5970 | 99.0328 | 96.2023 | 69.6244 | 4403 | 43 | 4357 | 172 | 164 | 95.3488 | |
| qzeng-custom | INDEL | D16_PLUS | map_l100_m2_e1 | het | 39.4150 | 90.1961 | 25.2174 | 86.3339 | 46 | 5 | 58 | 172 | 1 | 0.5814 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.7197 | 96.1682 | 97.2776 | 72.3295 | 6174 | 246 | 6146 | 172 | 65 | 37.7907 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.7197 | 96.1682 | 97.2776 | 72.3295 | 6174 | 246 | 6146 | 172 | 65 | 37.7907 | |
| gduggal-snapvard | SNP | * | segdup | het | 98.1316 | 97.2975 | 98.9803 | 94.4886 | 16849 | 468 | 16695 | 172 | 22 | 12.7907 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e1 | * | 99.4052 | 99.4898 | 99.3207 | 66.9624 | 25154 | 129 | 25150 | 172 | 5 | 2.9070 | |
| raldana-dualsentieon | SNP | * | segdup | * | 99.5928 | 99.7934 | 99.3931 | 89.8391 | 28009 | 58 | 28003 | 171 | 10 | 5.8480 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7294 | 94.6488 | 98.9035 | 60.3171 | 14592 | 825 | 15424 | 171 | 158 | 92.3977 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e1 | homalt | 68.2473 | 94.1176 | 53.5326 | 86.8477 | 192 | 12 | 197 | 171 | 154 | 90.0585 | |
| anovak-vg | INDEL | * | map_l150_m1_e0 | homalt | 76.1726 | 83.7662 | 69.8413 | 86.9894 | 387 | 75 | 396 | 171 | 153 | 89.4737 | |
| anovak-vg | INDEL | C1_5 | HG002compoundhet | het | 0.0000 | 0.0000 | 13.6364 | 74.7449 | 0 | 0 | 27 | 171 | 11 | 6.4328 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5930 | 99.2105 | 97.9830 | 63.7025 | 8294 | 66 | 8307 | 171 | 160 | 93.5673 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.7915 | 98.1506 | 89.8032 | 88.0725 | 1486 | 28 | 1506 | 171 | 13 | 7.6023 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3676 | 91.1466 | 93.6218 | 50.4528 | 2512 | 244 | 2510 | 171 | 166 | 97.0760 | |
| jli-custom | SNP | * | map_l150_m2_e0 | * | 99.1640 | 98.8698 | 99.4599 | 73.1036 | 31492 | 360 | 31489 | 171 | 59 | 34.5029 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1551 | 97.3006 | 99.0247 | 63.5436 | 17338 | 481 | 17362 | 171 | 64 | 37.4269 | |
| jpowers-varprowl | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.7965 | 98.7069 | 94.9587 | 77.6519 | 3206 | 42 | 3221 | 171 | 34 | 19.8830 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e0 | het | 92.5700 | 93.7629 | 91.4070 | 92.4193 | 1819 | 121 | 1819 | 171 | 34 | 19.8830 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9756 | 96.4774 | 99.5211 | 49.0897 | 35303 | 1289 | 35537 | 171 | 109 | 63.7427 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | * | 99.5813 | 99.1995 | 99.9661 | 17.9457 | 504366 | 4070 | 504306 | 171 | 77 | 45.0292 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e0 | * | 99.5641 | 99.4949 | 99.6335 | 71.1339 | 46487 | 236 | 46481 | 171 | 26 | 15.2047 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.7235 | 99.7792 | 97.6898 | 36.3761 | 7231 | 16 | 7231 | 171 | 170 | 99.4152 | |