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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64751-64800 / 86044 show all | |||||||||||||||
| gduggal-snapvard | SNP | ti | func_cds | * | 99.4321 | 99.1151 | 99.7511 | 27.3375 | 13665 | 122 | 13628 | 34 | 14 | 41.1765 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.2896 | 93.1726 | 99.6223 | 27.3304 | 7615 | 558 | 7650 | 29 | 28 | 96.5517 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.5175 | 97.1831 | 99.8891 | 27.3167 | 897 | 26 | 901 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6267 | 91.7101 | 99.8927 | 27.2780 | 3695 | 334 | 3723 | 4 | 3 | 75.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.4727 | 79.6334 | 99.5192 | 27.2727 | 391 | 100 | 414 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 86.5441 | 77.1084 | 98.6111 | 27.2727 | 64 | 19 | 71 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | tech_badpromoters | homalt | 94.1176 | 88.8889 | 100.0000 | 27.2727 | 8 | 1 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 91.1111 | 85.4167 | 97.6190 | 27.2727 | 164 | 28 | 164 | 4 | 4 | 100.0000 | |
| ckim-isaac | SNP | ti | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 27.2727 | 8 | 0 | 8 | 0 | 0 | ||
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 97.1193 | 94.4000 | 100.0000 | 27.2727 | 118 | 7 | 120 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 81.4286 | 68.6747 | 100.0000 | 27.2727 | 57 | 26 | 64 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D1_5 | tech_badpromoters | homalt | 94.1176 | 88.8889 | 100.0000 | 27.2727 | 8 | 1 | 8 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | tech_badpromoters | homalt | 94.1176 | 88.8889 | 100.0000 | 27.2727 | 8 | 1 | 8 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8954 | 94.0176 | 99.9548 | 27.2727 | 4369 | 278 | 4422 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 45.1613 | 30.4348 | 87.5000 | 27.2727 | 7 | 16 | 7 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | func_cds | homalt | 98.6301 | 97.2973 | 100.0000 | 27.2727 | 72 | 2 | 72 | 0 | 0 | ||
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 96.2076 | 93.2907 | 99.3127 | 27.2500 | 292 | 21 | 289 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | tv | * | * | 99.5705 | 99.3991 | 99.7425 | 27.2376 | 963863 | 5827 | 963776 | 2488 | 84 | 3.3762 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 81.9280 | 69.6538 | 99.4536 | 27.2366 | 342 | 149 | 364 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | SNP | tv | func_cds | * | 99.4080 | 99.8856 | 98.9350 | 27.2263 | 4366 | 5 | 4366 | 47 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.8519 | 94.5071 | 99.3160 | 27.2218 | 6951 | 404 | 6970 | 48 | 31 | 64.5833 | |
| jpowers-varprowl | INDEL | I1_5 | func_cds | homalt | 97.4359 | 95.7983 | 99.1304 | 27.2152 | 114 | 5 | 114 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 72.4560 | 79.2319 | 66.7478 | 27.2137 | 557 | 146 | 823 | 410 | 336 | 81.9512 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.2723 | 92.8126 | 100.0000 | 27.2105 | 4313 | 334 | 4363 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8903 | 99.8539 | 99.9268 | 27.2049 | 2734 | 4 | 2730 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.4780 | 89.9466 | 99.4903 | 27.1930 | 6397 | 715 | 6441 | 33 | 28 | 84.8485 | |
| egarrison-hhga | INDEL | I6_15 | HG002compoundhet | hetalt | 95.3278 | 91.5310 | 99.4533 | 27.1869 | 7814 | 723 | 7823 | 43 | 37 | 86.0465 | |
| ltrigg-rtg2 | SNP | tv | func_cds | het | 99.2144 | 99.8118 | 98.6240 | 27.1866 | 2652 | 5 | 2652 | 37 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0482 | 92.4350 | 99.9552 | 27.1689 | 4411 | 361 | 4464 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7738 | 99.5485 | 100.0000 | 27.1667 | 441 | 2 | 437 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9829 | 96.4509 | 99.5644 | 27.1624 | 5245 | 193 | 5257 | 23 | 22 | 95.6522 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 96.6942 | 93.6000 | 100.0000 | 27.1605 | 117 | 8 | 118 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | func_cds | het | 98.3051 | 98.3051 | 98.3051 | 27.1605 | 58 | 1 | 58 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0708 | 92.4769 | 99.9552 | 27.1601 | 4413 | 359 | 4466 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | * | het | 99.6262 | 99.6225 | 99.6299 | 27.1537 | 1866514 | 7073 | 1866391 | 6934 | 179 | 2.5815 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2010 | 96.9543 | 99.4801 | 27.1465 | 1146 | 36 | 1148 | 6 | 6 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.2248 | 74.4026 | 89.4244 | 27.1457 | 7037 | 2421 | 7644 | 904 | 893 | 98.7832 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.3159 | 93.2216 | 99.6227 | 27.1443 | 7619 | 554 | 7658 | 29 | 29 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 92.5582 | 86.9571 | 98.9306 | 27.1355 | 7107 | 1066 | 7308 | 79 | 75 | 94.9367 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 89.7947 | 82.2323 | 98.8889 | 27.1255 | 361 | 78 | 356 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 76.0161 | 83.1560 | 70.0052 | 27.1233 | 469 | 95 | 5340 | 2288 | 2284 | 99.8252 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6572 | 99.5964 | 99.7181 | 27.1206 | 2468 | 10 | 2476 | 7 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7386 | 93.9847 | 99.6588 | 27.1170 | 10437 | 668 | 10516 | 36 | 36 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.2389 | 79.1284 | 99.7203 | 27.1152 | 690 | 182 | 713 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.2699 | 96.6164 | 99.9810 | 27.1104 | 5254 | 184 | 5266 | 1 | 0 | 0.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 27.1057 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 27.1057 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.2940 | 96.7497 | 99.8884 | 27.0952 | 893 | 30 | 895 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.7497 | 95.9658 | 99.6012 | 27.0945 | 10657 | 448 | 10739 | 43 | 42 | 97.6744 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 63.3484 | 46.3576 | 100.0000 | 27.0833 | 70 | 81 | 70 | 0 | 0 | ||