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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63401-63450 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8348 | 99.6884 | 99.9816 | 59.7111 | 10877 | 34 | 10874 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m1_e0 | homalt | 99.4179 | 99.7664 | 99.0719 | 87.2031 | 854 | 2 | 854 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | homalt | 99.4146 | 99.6798 | 99.1507 | 88.0623 | 934 | 3 | 934 | 8 | 4 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e1 | homalt | 99.4201 | 99.6829 | 99.1588 | 88.1481 | 943 | 3 | 943 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | hetalt | 96.9221 | 94.0429 | 99.9832 | 52.1234 | 23680 | 1500 | 23795 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9261 | 100.0000 | 99.8524 | 72.8729 | 1353 | 0 | 1353 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 87.3181 | 84.0000 | 90.9091 | 83.8235 | 42 | 8 | 40 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l100_m0_e0 | homalt | 98.6328 | 99.2141 | 98.0583 | 83.0759 | 505 | 4 | 505 | 10 | 5 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | homalt | 99.1863 | 99.3480 | 99.0252 | 81.8088 | 1219 | 8 | 1219 | 12 | 6 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e0 | homalt | 99.2157 | 99.4758 | 98.9570 | 85.4238 | 759 | 4 | 759 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l125_m2_e1 | homalt | 99.2268 | 99.4832 | 98.9717 | 85.5417 | 770 | 4 | 770 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7261 | 98.7261 | 98.7261 | 63.8249 | 155 | 2 | 155 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3333 | 100.0000 | 96.7213 | 75.6000 | 61 | 0 | 59 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7343 | 95.5895 | 99.9775 | 64.8179 | 8886 | 410 | 8904 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9506 | 94.1018 | 99.9772 | 33.0820 | 8743 | 548 | 8785 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3809 | 98.8975 | 99.8690 | 76.5041 | 1525 | 17 | 1525 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1817 | 98.5900 | 99.7805 | 76.0326 | 909 | 13 | 909 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8141 | 93.8481 | 99.9738 | 26.3153 | 7597 | 498 | 7631 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4702 | 95.0930 | 99.9692 | 25.5353 | 6492 | 335 | 6501 | 2 | 1 | 50.0000 | |
| 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_merged | hetalt | 96.9506 | 94.1018 | 99.9772 | 33.0820 | 8743 | 548 | 8785 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.5229 | 95.1931 | 99.9696 | 26.4607 | 6555 | 331 | 6568 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7626 | 99.5802 | 99.9456 | 54.3815 | 14708 | 62 | 14709 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | hetalt | 97.4274 | 95.1629 | 99.8024 | 48.6555 | 964 | 49 | 1010 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.0017 | 96.1098 | 99.9695 | 34.1855 | 6547 | 265 | 6563 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7333 | 100.0000 | 99.4681 | 58.4530 | 374 | 0 | 374 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7093 | 100.0000 | 99.4203 | 56.2738 | 343 | 0 | 343 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9841 | 96.0831 | 99.9618 | 27.3710 | 5225 | 213 | 5236 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.9370 | 95.9975 | 99.9565 | 25.8751 | 4581 | 191 | 4593 | 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 | |