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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73001-73050 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.3516 | 98.3516 | 98.3516 | 75.3499 | 537 | 9 | 537 | 9 | 8 | 88.8889 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 84.4254 | 74.7368 | 97.0000 | 58.7912 | 284 | 96 | 291 | 9 | 8 | 88.8889 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.5311 | 89.0796 | 98.4509 | 45.0331 | 571 | 70 | 572 | 9 | 8 | 88.8889 | |
| egarrison-hhga | INDEL | I6_15 | map_siren | * | 94.0978 | 91.4754 | 96.8750 | 81.5974 | 279 | 26 | 279 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.5024 | 95.8159 | 99.2494 | 33.8300 | 1145 | 50 | 1190 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.7134 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.9517 | 89.0231 | 99.4582 | 32.2317 | 1622 | 200 | 1652 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.9195 | 88.9930 | 99.4234 | 30.1878 | 1520 | 188 | 1552 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.3449 | 96.3190 | 98.3929 | 80.3302 | 1099 | 42 | 1102 | 18 | 16 | 88.8889 | |
| egarrison-hhga | SNP | * | map_l100_m0_e0 | homalt | 99.7759 | 99.6299 | 99.9223 | 61.7548 | 11577 | 43 | 11577 | 9 | 8 | 88.8889 | |
| egarrison-hhga | SNP | * | map_siren | homalt | 99.8639 | 99.7770 | 99.9510 | 53.4112 | 55033 | 123 | 55033 | 27 | 24 | 88.8889 | |
| eyeh-varpipe | INDEL | * | map_l125_m0_e0 | homalt | 96.8008 | 97.1831 | 96.4215 | 89.3815 | 276 | 8 | 485 | 18 | 16 | 88.8889 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 47.0588 | 94.0351 | 0 | 0 | 8 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 52.6316 | 93.9297 | 0 | 0 | 10 | 9 | 8 | 88.8889 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 78.0231 | 64.9737 | 97.6316 | 49.3333 | 371 | 200 | 371 | 9 | 8 | 88.8889 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1899 | 99.0155 | 99.3649 | 88.4872 | 1408 | 14 | 1408 | 9 | 8 | 88.8889 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8147 | 96.5909 | 97.0395 | 67.8647 | 595 | 21 | 590 | 18 | 16 | 88.8889 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.9073 | 92.8033 | 99.2261 | 33.2760 | 1109 | 86 | 1154 | 9 | 8 | 88.8889 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002complexvar | * | 98.3417 | 97.4026 | 99.2991 | 67.2031 | 1275 | 34 | 1275 | 9 | 8 | 88.8889 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9273 | 88.2463 | 98.1328 | 62.8086 | 473 | 63 | 473 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | homalt | 99.8679 | 99.8207 | 99.9150 | 58.2795 | 10579 | 19 | 10583 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | * | 98.4592 | 97.6318 | 99.3007 | 66.7785 | 1278 | 31 | 1278 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.7577 | 97.7169 | 82.9975 | 80.7748 | 856 | 20 | 659 | 135 | 120 | 88.8889 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 88.0509 | 79.0340 | 99.3902 | 32.6949 | 1440 | 382 | 1467 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | het | 98.9714 | 98.3439 | 99.6068 | 59.5940 | 2316 | 39 | 2280 | 9 | 8 | 88.8889 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.9807 | 96.8504 | 93.1818 | 46.5587 | 123 | 4 | 123 | 9 | 8 | 88.8889 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.2565 | 91.3831 | 99.4728 | 30.2126 | 1665 | 157 | 1698 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | homalt | 99.8962 | 99.8773 | 99.9151 | 58.2388 | 10585 | 13 | 10590 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | I16_PLUS | HG002complexvar | * | 98.2632 | 97.2498 | 99.2980 | 66.8048 | 1273 | 36 | 1273 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | homalt | 99.8699 | 99.8736 | 99.8662 | 51.8330 | 13431 | 17 | 13436 | 18 | 16 | 88.8889 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.1643 | 84.6457 | 87.7384 | 69.2630 | 645 | 117 | 644 | 90 | 80 | 88.8889 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.9024 | 39.1304 | 50.0000 | 86.0465 | 9 | 14 | 9 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.0000 | 40.9091 | 50.0000 | 82.1782 | 9 | 13 | 9 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 74.8352 | 86.7069 | 65.8228 | 74.0520 | 574 | 88 | 572 | 297 | 264 | 88.8889 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 69.2308 | 61.0169 | 80.0000 | 61.2069 | 36 | 23 | 36 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | hetalt | 97.6611 | 95.6475 | 99.7614 | 69.0744 | 3538 | 161 | 3763 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.5787 | 91.0009 | 94.2122 | 75.0968 | 1982 | 196 | 1758 | 108 | 96 | 88.8889 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 60.5664 | 45.6229 | 90.0673 | 45.8084 | 4779 | 5696 | 4815 | 531 | 472 | 88.8889 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 87.5997 | 84.4444 | 91.0000 | 79.0356 | 114 | 21 | 91 | 9 | 8 | 88.8889 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.0874 | 100.0000 | 94.3396 | 74.8418 | 153 | 0 | 150 | 9 | 8 | 88.8889 | |
| ckim-dragen | INDEL | I16_PLUS | HG002complexvar | * | 98.6149 | 97.9374 | 99.3018 | 67.0164 | 1282 | 27 | 1280 | 9 | 8 | 88.8889 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | homalt | 99.4909 | 99.2169 | 99.7664 | 57.4442 | 11529 | 91 | 11532 | 27 | 24 | 88.8889 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5178 | 99.1170 | 99.9219 | 62.2385 | 11450 | 102 | 11509 | 9 | 8 | 88.8889 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5178 | 99.1170 | 99.9219 | 62.2385 | 11450 | 102 | 11509 | 9 | 8 | 88.8889 | |
| ckim-dragen | SNP | ti | map_l250_m1_e0 | homalt | 99.1261 | 98.8177 | 99.4364 | 82.0944 | 1588 | 19 | 1588 | 9 | 8 | 88.8889 | |
| ckim-dragen | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7426 | 99.6705 | 99.8147 | 66.5588 | 4840 | 16 | 4849 | 9 | 8 | 88.8889 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8986 | 96.7532 | 97.0443 | 67.8288 | 596 | 20 | 591 | 18 | 16 | 88.8889 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2254 | 99.0858 | 99.3653 | 88.4800 | 1409 | 13 | 1409 | 9 | 8 | 88.8889 | |
| ckim-isaac | INDEL | * | * | hetalt | 87.6357 | 79.0308 | 98.3434 | 43.3219 | 19945 | 5292 | 20303 | 342 | 304 | 88.8889 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 28.0702 | 17.9775 | 64.0000 | 78.6325 | 16 | 73 | 16 | 9 | 8 | 88.8889 | |