PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17551-17600 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.4444 | 3 | 0 | 3 | 0 | 0 | ||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6416 | 99.4125 | 99.8717 | 75.1815 | 3892 | 23 | 3892 | 5 | 5 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2498 | 93.8518 | 98.7735 | 62.0410 | 7892 | 517 | 7892 | 98 | 83 | 84.6939 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3350 | 98.3733 | 98.2966 | 76.2904 | 2419 | 40 | 2366 | 41 | 27 | 65.8537 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.8267 | 90.2557 | 99.8855 | 32.3046 | 4307 | 465 | 4360 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3289 | 98.9813 | 95.7307 | 72.6231 | 1166 | 12 | 1166 | 52 | 52 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.5238 | 93.1587 | 98.0122 | 81.7675 | 640 | 47 | 641 | 13 | 7 | 53.8462 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.5559 | 93.0894 | 98.1567 | 87.7884 | 229 | 17 | 213 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.7829 | 92.3684 | 99.4595 | 64.7619 | 351 | 29 | 368 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.7500 | 98.3607 | 89.5522 | 91.1842 | 60 | 1 | 60 | 7 | 5 | 71.4286 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4023 | 95.4216 | 99.4669 | 60.8921 | 8024 | 385 | 8023 | 43 | 32 | 74.4186 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2057 | 97.3566 | 99.0698 | 75.6937 | 2394 | 65 | 2343 | 22 | 11 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6428 | 93.5038 | 100.0000 | 31.5949 | 4462 | 310 | 4512 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6903 | 99.1511 | 98.2338 | 72.3424 | 1168 | 10 | 1168 | 21 | 21 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6488 | 94.3546 | 99.0574 | 55.6339 | 3677 | 220 | 3678 | 35 | 28 | 80.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1094 | 95.4346 | 98.8440 | 49.6543 | 14110 | 675 | 14108 | 165 | 157 | 95.1515 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2533 | 95.0967 | 97.4383 | 65.3458 | 4228 | 218 | 4184 | 110 | 105 | 95.4545 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8082 | 93.8528 | 99.9557 | 28.4115 | 6733 | 441 | 6775 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9318 | 99.4945 | 98.3755 | 50.6856 | 3149 | 16 | 3149 | 52 | 50 | 96.1538 | |
| hfeng-pmm2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6345 | 95.4020 | 97.8993 | 66.6779 | 3880 | 187 | 3868 | 83 | 65 | 78.3133 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6034 | 94.8872 | 94.3212 | 81.3996 | 1262 | 68 | 1063 | 64 | 51 | 79.6875 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5928 | 93.5112 | 99.8845 | 36.3837 | 1542 | 107 | 1729 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6703 | 98.8971 | 98.4446 | 64.4784 | 1076 | 12 | 1076 | 17 | 12 | 70.5882 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7841 | 96.1888 | 99.4332 | 49.3970 | 21402 | 848 | 21403 | 122 | 112 | 91.8033 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8307 | 96.4864 | 99.2129 | 59.5573 | 8101 | 295 | 8067 | 64 | 55 | 85.9375 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7869 | 93.7966 | 99.9740 | 28.5303 | 7666 | 507 | 7701 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.1031 | 99.1903 | 99.0160 | 51.1670 | 5635 | 46 | 5635 | 56 | 56 | 100.0000 | |
| hfeng-pmm2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3756 | 97.0003 | 99.7905 | 79.9603 | 10477 | 324 | 10478 | 22 | 4 | 18.1818 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5896 | 95.5833 | 99.6819 | 79.9854 | 6579 | 304 | 6580 | 21 | 4 | 19.0476 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 95.8333 | 3 | 0 | 3 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7311 | 99.4891 | 99.9743 | 79.8583 | 3895 | 20 | 3895 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.5241 | 97.2660 | 99.8150 | 78.5959 | 6475 | 182 | 6476 | 12 | 1 | 8.3333 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8115 | 95.9651 | 99.7303 | 78.4840 | 4067 | 171 | 4068 | 11 | 1 | 9.0909 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 95.1220 | 2 | 0 | 2 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7512 | 99.5449 | 99.9585 | 78.7236 | 2406 | 11 | 2406 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4527 | 93.8414 | 99.2135 | 55.2222 | 3657 | 240 | 3658 | 29 | 24 | 82.7586 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.2828 | 95.8599 | 98.7486 | 72.8116 | 903 | 39 | 868 | 11 | 7 | 63.6364 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.0710 | 92.4735 | 99.9597 | 37.1168 | 2445 | 199 | 2481 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.0173 | 99.3569 | 94.7853 | 69.0702 | 309 | 2 | 309 | 17 | 16 | 94.1176 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8837 | 95.6479 | 98.1519 | 65.9512 | 3890 | 177 | 3877 | 73 | 64 | 87.6712 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9883 | 95.6391 | 94.3463 | 80.9074 | 1272 | 58 | 1068 | 64 | 58 | 90.6250 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5281 | 93.3899 | 99.8846 | 35.7196 | 1540 | 109 | 1731 | 2 | 2 | 100.0000 | |