PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23501-23550 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.5149 | 99.0050 | 98.0296 | 88.4725 | 199 | 2 | 199 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5366 | 99.0196 | 98.0583 | 88.5237 | 202 | 2 | 202 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 90.9909 | 83.7736 | 99.5690 | 47.3923 | 444 | 86 | 462 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 90.5668 | 83.1956 | 99.3711 | 46.1017 | 302 | 61 | 316 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 76.9417 | 63.8554 | 96.7742 | 29.5455 | 53 | 30 | 60 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4012 | 99.2823 | 99.5204 | 47.6788 | 415 | 3 | 415 | 2 | 1 | 50.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.5658 | 99.5452 | 99.5863 | 69.3755 | 4815 | 22 | 4815 | 20 | 10 | 50.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9373 | 99.9248 | 99.9498 | 33.7544 | 3984 | 3 | 3984 | 2 | 1 | 50.0000 | |
| jlack-gatk | SNP | ti | map_l250_m0_e0 | homalt | 97.5439 | 95.6422 | 99.5227 | 91.4751 | 417 | 19 | 417 | 2 | 1 | 50.0000 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3694 | 99.5142 | 99.2251 | 69.4063 | 3073 | 15 | 3073 | 24 | 12 | 50.0000 | |
| jli-custom | INDEL | * | func_cds | * | 99.4376 | 99.3258 | 99.5495 | 41.4248 | 442 | 3 | 442 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3529 | 98.9842 | 99.7244 | 73.0843 | 5067 | 52 | 5065 | 14 | 7 | 50.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7085 | 99.7349 | 99.6820 | 71.4048 | 1881 | 5 | 1881 | 6 | 3 | 50.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8361 | 99.7661 | 99.9062 | 74.5708 | 2133 | 5 | 2131 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 91.6509 | 92.0000 | 91.3043 | 82.6415 | 46 | 4 | 42 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | homalt | 99.1284 | 99.2070 | 99.0499 | 83.3333 | 1251 | 10 | 1251 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | homalt | 99.1420 | 99.2194 | 99.0647 | 83.4066 | 1271 | 10 | 1271 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | het | 97.1408 | 95.7543 | 98.5680 | 65.7400 | 1060 | 47 | 826 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.2456 | 97.6744 | 98.8235 | 80.0937 | 168 | 4 | 168 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2683 | 98.7864 | 99.7549 | 68.4699 | 814 | 10 | 814 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5851 | 99.7230 | 99.4475 | 61.2420 | 360 | 1 | 360 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m2_e0 | het | 90.3408 | 89.5833 | 91.1111 | 94.6492 | 43 | 5 | 41 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m2_e1 | het | 90.9254 | 90.1961 | 91.6667 | 94.4380 | 46 | 5 | 44 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | segdup | * | 97.4359 | 98.2759 | 96.6102 | 95.0956 | 57 | 1 | 57 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D16_PLUS | segdup | het | 97.2222 | 100.0000 | 94.5946 | 95.3224 | 37 | 0 | 35 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1481 | 97.3753 | 98.9333 | 63.7506 | 742 | 20 | 742 | 8 | 4 | 50.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7293 | 99.8915 | 99.5676 | 76.0425 | 921 | 1 | 921 | 4 | 2 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | homalt | 99.1334 | 98.9619 | 99.3056 | 74.9565 | 286 | 3 | 286 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7257 | 99.6711 | 99.7805 | 65.7905 | 909 | 3 | 909 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4522 | 99.1505 | 99.7558 | 69.0710 | 817 | 7 | 817 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5851 | 99.7230 | 99.4475 | 61.4072 | 360 | 1 | 360 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7261 | 98.7261 | 98.7261 | 62.5298 | 155 | 2 | 155 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3333 | 100.0000 | 96.7213 | 74.3697 | 61 | 0 | 59 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | * | het | 99.5975 | 99.3183 | 99.8783 | 55.2507 | 86977 | 597 | 86982 | 106 | 53 | 50.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4459 | 98.9979 | 99.8981 | 48.0313 | 11756 | 119 | 11761 | 12 | 6 | 50.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6549 | 94.0260 | 99.4350 | 76.0811 | 362 | 23 | 352 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002complexvar | hetalt | 97.4277 | 95.1629 | 99.8030 | 47.8149 | 964 | 49 | 1013 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0477 | 98.3085 | 99.7982 | 63.4722 | 988 | 17 | 989 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5356 | 99.3048 | 99.7674 | 61.5385 | 857 | 6 | 858 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6815 | 93.6024 | 99.9702 | 26.8790 | 6657 | 455 | 6701 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6740 | 93.5880 | 99.9704 | 27.5688 | 6714 | 460 | 6758 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9050 | 97.9929 | 99.8342 | 48.4986 | 3613 | 74 | 3613 | 6 | 3 | 50.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 99.4819 | 100.0000 | 98.9691 | 42.7729 | 192 | 0 | 192 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4375 | 97.4227 | 99.4737 | 74.0968 | 378 | 10 | 378 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8615 | 98.0480 | 99.6885 | 70.4692 | 1306 | 26 | 1280 | 4 | 2 | 50.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6041 | 99.3604 | 99.8489 | 69.0699 | 2641 | 17 | 2643 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.4250 | 96.3768 | 98.4962 | 90.6073 | 266 | 10 | 262 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4703 | 99.1784 | 99.7639 | 83.7209 | 845 | 7 | 845 | 2 | 1 | 50.0000 | |