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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70001-70050 / 86044 show all | |||||||||||||||
| 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 | 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 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.4047 | 93.2256 | 97.6882 | 56.5471 | 3633 | 264 | 3634 | 86 | 79 | 91.8605 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1776 | 96.3907 | 97.9775 | 74.4326 | 908 | 34 | 872 | 18 | 13 | 72.2222 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.3785 | 91.3011 | 99.8371 | 36.7431 | 2414 | 230 | 2451 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.6706 | 100.0000 | 82.9333 | 68.7239 | 311 | 0 | 311 | 64 | 63 | 98.4375 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.8694 | 99.1317 | 98.6084 | 82.6759 | 4110 | 36 | 4110 | 58 | 16 | 27.5862 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.4586 | 99.0170 | 97.9065 | 84.2545 | 2619 | 26 | 2619 | 56 | 14 | 25.0000 | |
| jlack-gatk | SNP | tv | 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 | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.5984 | 99.3324 | 99.8658 | 78.7628 | 1488 | 10 | 1488 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0520 | 97.3439 | 98.7704 | 57.5661 | 42184 | 1151 | 42011 | 523 | 468 | 89.4837 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3108 | 98.0414 | 98.5817 | 67.0115 | 17470 | 349 | 17099 | 246 | 203 | 82.5203 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0172 | 94.5909 | 99.5711 | 30.5429 | 13273 | 759 | 13466 | 58 | 56 | 96.5517 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8684 | 99.6256 | 98.1226 | 58.6142 | 11441 | 43 | 11446 | 219 | 209 | 95.4338 | |
| jli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| 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 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.3251 | 99.4893 | 99.1616 | 77.5985 | 6623 | 34 | 6623 | 56 | 11 | 19.6429 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.1302 | 99.5045 | 98.7588 | 79.7621 | 4217 | 21 | 4217 | 53 | 8 | 15.0943 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.3333 | 2 | 0 | 2 | 0 | 0 | ||
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6683 | 99.4621 | 99.8754 | 72.2887 | 2404 | 13 | 2404 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.0414 | 91.8486 | 96.3415 | 81.8634 | 631 | 56 | 632 | 24 | 14 | 58.3333 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9161 | 93.4959 | 96.3801 | 87.9826 | 230 | 16 | 213 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.1959 | 89.4737 | 99.4444 | 63.3401 | 340 | 40 | 358 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.7059 | 100.0000 | 81.3333 | 90.5779 | 61 | 0 | 61 | 14 | 13 | 92.8571 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.1500 | 99.3519 | 98.9488 | 79.8585 | 10731 | 70 | 10731 | 114 | 27 | 23.6842 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8719 | 99.3172 | 98.4305 | 81.7659 | 6836 | 47 | 6836 | 109 | 22 | 20.1835 | |
| 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 | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4762 | 95.2989 | 97.6829 | 51.6687 | 21204 | 1046 | 21205 | 503 | 474 | 94.2346 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7047 | 98.0586 | 97.3534 | 62.7778 | 8233 | 163 | 8203 | 223 | 199 | 89.2377 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.2746 | 89.5387 | 99.5395 | 27.7522 | 7318 | 855 | 7349 | 34 | 30 | 88.2353 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.6339 | 99.5071 | 95.8298 | 51.0822 | 5653 | 28 | 5653 | 246 | 245 | 99.5935 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.1122 | 95.6040 | 96.6259 | 60.2914 | 41430 | 1905 | 41238 | 1440 | 1303 | 90.4861 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.7207 | 98.0134 | 95.4617 | 70.0763 | 17465 | 354 | 17080 | 812 | 691 | 85.0985 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.2610 | 89.4954 | 99.5627 | 34.0219 | 12558 | 1474 | 12751 | 56 | 50 | 89.2857 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2339 | 99.3295 | 95.2250 | 57.6340 | 11407 | 77 | 11407 | 572 | 562 | 98.2517 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.1732 | 94.9348 | 95.4128 | 68.8499 | 3861 | 206 | 3848 | 185 | 153 | 82.7027 | |