PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68351-68400 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7048 | 99.4757 | 99.9349 | 66.5658 | 16886 | 89 | 16886 | 11 | 11 | 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 | map_l100_m0_e0 | homalt | 98.9685 | 98.1219 | 99.8299 | 59.9927 | 7628 | 146 | 7628 | 13 | 11 | 84.6154 | |
| jlack-gatk | SNP | tv | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4981 | 99.1184 | 97.8856 | 89.2499 | 787 | 7 | 787 | 17 | 11 | 64.7059 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9292 | 99.9557 | 99.9027 | 55.9852 | 11291 | 5 | 11292 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.3930 | 99.3902 | 97.4155 | 59.5008 | 489 | 3 | 490 | 13 | 11 | 84.6154 | |
| jli-custom | INDEL | * | map_siren | homalt | 99.3607 | 99.4350 | 99.2865 | 79.8135 | 2640 | 15 | 2644 | 19 | 11 | 57.8947 | |
| hfeng-pmm2 | SNP | * | map_l100_m0_e0 | homalt | 99.7504 | 99.7418 | 99.7590 | 63.9103 | 11590 | 30 | 11590 | 28 | 11 | 39.2857 | |
| hfeng-pmm2 | SNP | * | map_l150_m0_e0 | het | 98.4569 | 98.8665 | 98.0507 | 83.2717 | 7850 | 90 | 7847 | 156 | 11 | 7.0513 | |
| hfeng-pmm2 | SNP | * | map_l150_m1_e0 | homalt | 99.7650 | 99.7782 | 99.7517 | 71.3283 | 11248 | 25 | 11248 | 28 | 11 | 39.2857 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e0 | homalt | 99.7735 | 99.7863 | 99.7607 | 73.5081 | 11674 | 25 | 11674 | 28 | 11 | 39.2857 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | homalt | 99.7760 | 99.7886 | 99.7633 | 73.5353 | 11802 | 25 | 11802 | 28 | 11 | 39.2857 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | het | 98.8238 | 99.1529 | 98.4969 | 78.6095 | 8193 | 70 | 8191 | 125 | 11 | 8.8000 | |
| hfeng-pmm2 | SNP | tv | map_l100_m0_e0 | het | 98.8749 | 99.1831 | 98.5687 | 74.1359 | 7163 | 59 | 7162 | 104 | 11 | 10.5769 | |
| hfeng-pmm2 | SNP | tv | map_l125_m1_e0 | het | 98.9851 | 99.2198 | 98.7515 | 74.5484 | 10047 | 79 | 10045 | 127 | 11 | 8.6614 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e0 | het | 99.0157 | 99.2434 | 98.7891 | 75.7772 | 10363 | 79 | 10361 | 127 | 11 | 8.6614 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7891 | 99.6426 | 99.9361 | 57.3259 | 28159 | 101 | 28161 | 18 | 11 | 61.1111 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | * | 96.9227 | 95.0700 | 98.8491 | 64.9955 | 1562 | 81 | 1546 | 18 | 11 | 61.1111 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | het | 98.9670 | 98.0448 | 99.9068 | 54.1875 | 20359 | 406 | 20363 | 19 | 11 | 57.8947 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002complexvar | het | 95.8589 | 93.7669 | 98.0464 | 66.4344 | 1038 | 69 | 803 | 16 | 11 | 68.7500 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 95.0943 | 99.2126 | 91.3043 | 52.2491 | 126 | 1 | 126 | 12 | 11 | 91.6667 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.6173 | 95.2922 | 97.9798 | 63.9563 | 587 | 29 | 582 | 12 | 11 | 91.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8006 | 99.6609 | 99.9407 | 54.5675 | 25273 | 86 | 25275 | 15 | 11 | 73.3333 | |
| raldana-dualsentieon | INDEL | I16_PLUS | HG002complexvar | homalt | 98.0952 | 100.0000 | 96.2617 | 68.7743 | 309 | 0 | 309 | 12 | 11 | 91.6667 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.4371 | 91.9154 | 99.2394 | 60.4914 | 2217 | 195 | 2218 | 17 | 11 | 64.7059 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.6821 | 90.4306 | 99.3530 | 87.4575 | 2457 | 260 | 2457 | 16 | 11 | 68.7500 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.2637 | 96.9355 | 99.6289 | 78.1445 | 10470 | 331 | 10470 | 39 | 11 | 28.2051 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5310 | 97.2348 | 99.8622 | 66.0735 | 9424 | 268 | 9424 | 13 | 11 | 84.6154 | |
| raldana-dualsentieon | SNP | * | map_l125_m1_e0 | homalt | 99.7690 | 99.6273 | 99.9110 | 62.5841 | 16842 | 63 | 16842 | 15 | 11 | 73.3333 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e0 | homalt | 99.7723 | 99.6317 | 99.9134 | 65.2834 | 17311 | 64 | 17311 | 15 | 11 | 73.3333 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e1 | homalt | 99.7744 | 99.6350 | 99.9142 | 65.3032 | 17468 | 64 | 17468 | 15 | 11 | 73.3333 | |
| raldana-dualsentieon | SNP | * | map_l150_m1_e0 | * | 98.9484 | 98.9905 | 98.9063 | 73.9052 | 30300 | 309 | 30294 | 335 | 11 | 3.2836 | |
| raldana-dualsentieon | SNP | ti | map_l125_m1_e0 | * | 99.1157 | 99.1614 | 99.0701 | 69.2148 | 29089 | 246 | 29085 | 273 | 11 | 4.0293 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e0 | * | 99.1246 | 99.1738 | 99.0754 | 71.0207 | 30008 | 250 | 30004 | 280 | 11 | 3.9286 | |
| raldana-dualsentieon | SNP | ti | map_l125_m2_e1 | * | 99.1254 | 99.1822 | 99.0686 | 71.0811 | 30319 | 250 | 30315 | 285 | 11 | 3.8597 | |
| rpoplin-dv42 | INDEL | * | map_siren | homalt | 99.1894 | 99.0584 | 99.3208 | 79.6138 | 2630 | 25 | 2632 | 18 | 11 | 61.1111 | |
| rpoplin-dv42 | INDEL | D16_PLUS | * | hetalt | 90.5247 | 83.1350 | 99.3563 | 34.4206 | 1607 | 326 | 1698 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 90.5141 | 83.1176 | 99.3556 | 34.2956 | 1605 | 326 | 1696 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.5141 | 83.1176 | 99.3556 | 34.2956 | 1605 | 326 | 1696 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.2294 | 97.7556 | 96.7089 | 76.0751 | 392 | 9 | 382 | 13 | 11 | 84.6154 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5630 | 99.4272 | 99.6991 | 49.6904 | 3645 | 21 | 3645 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 87.8698 | 84.3750 | 91.6667 | 85.3807 | 135 | 25 | 132 | 12 | 11 | 91.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | hetalt | 96.6129 | 94.0904 | 99.2745 | 71.2548 | 1624 | 102 | 1642 | 12 | 11 | 91.6667 | |
| rpoplin-dv42 | SNP | * | map_l250_m1_e0 | homalt | 98.6481 | 97.7670 | 99.5453 | 86.6597 | 2408 | 55 | 2408 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.6468 | 99.5944 | 99.6992 | 79.9741 | 6630 | 27 | 6628 | 20 | 11 | 55.0000 | |
| rpoplin-dv42 | SNP | ti | map_l250_m0_e0 | het | 97.5322 | 97.3233 | 97.7419 | 92.5223 | 909 | 25 | 909 | 21 | 11 | 52.3810 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.2050 | 96.4561 | 97.9656 | 65.7923 | 626 | 23 | 626 | 13 | 12 | 92.3077 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6894 | 93.8694 | 99.6841 | 24.6230 | 3782 | 247 | 3787 | 12 | 12 | 100.0000 | |