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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54651-54700 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4583 | 97.2091 | 99.7401 | 57.5217 | 17659 | 507 | 17653 | 46 | 39 | 84.7826 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4583 | 97.2091 | 99.7401 | 57.5217 | 17659 | 507 | 17653 | 46 | 39 | 84.7826 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 69.6394 | 53.9936 | 98.0519 | 57.5172 | 169 | 144 | 302 | 6 | 6 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | * | homalt | 95.8146 | 92.1560 | 99.7758 | 57.5165 | 55688 | 4740 | 55641 | 125 | 99 | 79.2000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7963 | 98.1618 | 97.4335 | 57.5156 | 1068 | 20 | 1063 | 28 | 24 | 85.7143 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.9444 | 77.0743 | 97.1216 | 57.5074 | 14073 | 4186 | 14070 | 417 | 292 | 70.0240 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.3286 | 85.3061 | 87.3759 | 57.5045 | 627 | 108 | 616 | 89 | 86 | 96.6292 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.7569 | 99.8600 | 99.6542 | 57.5039 | 17826 | 25 | 17865 | 62 | 15 | 24.1935 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8185 | 95.8304 | 99.8909 | 57.5027 | 5493 | 239 | 5494 | 6 | 4 | 66.6667 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.8578 | 97.1545 | 98.5714 | 57.5022 | 478 | 14 | 483 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0890 | 98.6667 | 99.5150 | 57.5021 | 1036 | 14 | 1026 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 91.8919 | 85.0000 | 100.0000 | 57.5000 | 17 | 3 | 17 | 0 | 0 | ||
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 38.5511 | 68.5714 | 26.8126 | 57.5000 | 336 | 154 | 196 | 535 | 531 | 99.2523 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 83.1169 | 74.4186 | 94.1176 | 57.5000 | 32 | 11 | 32 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7289 | 99.8064 | 97.6744 | 57.4974 | 5670 | 11 | 5670 | 135 | 133 | 98.5185 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.3163 | 97.0393 | 99.6273 | 57.4974 | 1606 | 49 | 1604 | 6 | 3 | 50.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002compoundhet | het | 86.2040 | 90.6173 | 82.2006 | 57.4966 | 367 | 38 | 254 | 55 | 53 | 96.3636 | |
| jli-custom | INDEL | * | * | hetalt | 96.4996 | 93.5214 | 99.6737 | 57.4952 | 23602 | 1635 | 23825 | 78 | 76 | 97.4359 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | homalt | 98.7629 | 97.5561 | 100.0000 | 57.4941 | 8822 | 221 | 8817 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7377 | 99.8240 | 97.6748 | 57.4932 | 5671 | 10 | 5671 | 135 | 133 | 98.5185 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7438 | 99.5435 | 99.9450 | 57.4906 | 16354 | 75 | 16352 | 9 | 2 | 22.2222 | |
| gduggal-snapfb | INDEL | D6_15 | HG002complexvar | hetalt | 67.4067 | 59.7236 | 77.3585 | 57.4866 | 605 | 408 | 123 | 36 | 35 | 97.2222 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 93.4891 | 88.8889 | 98.5915 | 57.4850 | 8 | 1 | 70 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | hetalt | 79.4743 | 66.1627 | 99.4916 | 57.4825 | 7395 | 3782 | 7437 | 38 | 38 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | HG002complexvar | homalt | 80.7881 | 69.2042 | 97.0297 | 57.4737 | 200 | 89 | 196 | 6 | 5 | 83.3333 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 59.4656 | 87.5000 | 45.0363 | 57.4665 | 175 | 25 | 186 | 227 | 205 | 90.3084 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9344 | 96.1664 | 99.7686 | 57.4637 | 12041 | 480 | 12074 | 28 | 18 | 64.2857 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9791 | 98.2989 | 99.6689 | 57.4619 | 12308 | 213 | 12341 | 41 | 28 | 68.2927 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.6553 | 93.5940 | 99.9237 | 57.4617 | 10461 | 716 | 10476 | 8 | 8 | 100.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7554 | 98.3399 | 99.1744 | 57.4612 | 10900 | 184 | 10811 | 90 | 55 | 61.1111 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 22.0793 | 12.5407 | 92.2309 | 57.4591 | 1194 | 8327 | 1294 | 109 | 93 | 85.3211 | |
| ckim-dragen | INDEL | * | HG002complexvar | het | 99.6184 | 99.4569 | 99.7805 | 57.4574 | 45961 | 251 | 45458 | 100 | 50 | 50.0000 | |
| egarrison-hhga | INDEL | D1_5 | * | * | 96.9873 | 96.8033 | 97.1720 | 57.4559 | 142054 | 4691 | 142118 | 4136 | 3666 | 88.6364 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.2354 | 82.2465 | 84.2483 | 57.4547 | 1728 | 373 | 1642 | 307 | 301 | 98.0456 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.5636 | 99.5347 | 95.6691 | 57.4517 | 10055 | 47 | 10073 | 456 | 383 | 83.9912 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 75.7488 | 61.1544 | 99.4924 | 57.4514 | 392 | 249 | 392 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | * | homalt | 91.2395 | 85.5426 | 97.7493 | 57.4509 | 5337 | 902 | 5342 | 123 | 103 | 83.7398 | |
| ciseli-custom | SNP | ti | map_siren | * | 90.7989 | 89.0429 | 92.6255 | 57.4504 | 89359 | 10996 | 89077 | 7092 | 2003 | 28.2431 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002complexvar | * | 99.3660 | 99.1319 | 99.6013 | 57.4494 | 32431 | 284 | 32474 | 130 | 115 | 88.4615 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 15.0000 | 57.4468 | 0 | 92 | 3 | 17 | 17 | 100.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.4953 | 98.4031 | 98.5877 | 57.4464 | 10907 | 177 | 10820 | 155 | 36 | 23.2258 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e1 | homalt | 67.0382 | 58.2650 | 78.9219 | 57.4454 | 6676 | 4782 | 6676 | 1783 | 1698 | 95.2328 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | homalt | 99.4909 | 99.2169 | 99.7664 | 57.4442 | 11529 | 91 | 11532 | 27 | 24 | 88.8889 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.7199 | 99.5649 | 99.8753 | 57.4423 | 1602 | 7 | 1602 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | * | het | 99.5696 | 99.7077 | 99.4320 | 57.4420 | 87318 | 256 | 87348 | 499 | 434 | 86.9739 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7590 | 99.5966 | 99.9219 | 57.4394 | 28146 | 114 | 28148 | 22 | 15 | 68.1818 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1185 | 98.1869 | 98.0501 | 57.4392 | 704 | 13 | 704 | 14 | 12 | 85.7143 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9638 | 99.9277 | 100.0000 | 57.4376 | 1382 | 1 | 1382 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | hetalt | 97.2799 | 94.7124 | 99.9906 | 57.4359 | 10586 | 591 | 10643 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5303 | 98.9305 | 98.1333 | 57.4347 | 370 | 4 | 368 | 7 | 4 | 57.1429 | |