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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26851-26900 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.0441 | 87.4766 | 99.3684 | 70.7692 | 468 | 67 | 472 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9303 | 100.0000 | 99.8608 | 46.0035 | 2152 | 0 | 2152 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | map_l150_m0_e0 | homalt | 98.4802 | 98.7805 | 98.1818 | 90.1610 | 162 | 2 | 162 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | homalt | 98.9177 | 98.9177 | 98.9177 | 87.2411 | 457 | 5 | 457 | 5 | 3 | 60.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | homalt | 98.9605 | 98.9605 | 98.9605 | 88.3873 | 476 | 5 | 476 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6820 | 95.7792 | 99.6619 | 56.9975 | 1180 | 52 | 1179 | 4 | 3 | 75.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m1_e0 | * | 99.0792 | 98.9177 | 99.2412 | 80.6907 | 1828 | 20 | 1831 | 14 | 3 | 21.4286 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m2_e0 | * | 99.0853 | 98.9034 | 99.2678 | 81.4098 | 1894 | 21 | 1898 | 14 | 3 | 21.4286 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l100_m2_e1 | * | 99.0966 | 98.9170 | 99.2769 | 81.5232 | 1918 | 21 | 1922 | 14 | 3 | 21.4286 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m1_e0 | * | 98.9456 | 99.0809 | 98.8106 | 83.8505 | 1078 | 10 | 1080 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.9520 | 99.0376 | 98.8666 | 84.6288 | 1132 | 11 | 1134 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.9647 | 99.0493 | 98.8803 | 84.7056 | 1146 | 11 | 1148 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.6799 | 98.8842 | 98.4765 | 86.4946 | 709 | 8 | 711 | 11 | 3 | 27.2727 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m2_e0 | * | 98.6930 | 98.8204 | 98.5658 | 87.1803 | 754 | 9 | 756 | 11 | 3 | 27.2727 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m2_e1 | * | 98.6531 | 98.7147 | 98.5915 | 87.1946 | 768 | 10 | 770 | 11 | 3 | 27.2727 | |
| hfeng-pmm3 | INDEL | D1_5 | map_siren | homalt | 99.6576 | 99.5719 | 99.7434 | 77.6311 | 1163 | 5 | 1166 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.2643 | 90.4306 | 98.4375 | 74.6367 | 189 | 20 | 189 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.8776 | 90.5512 | 97.4576 | 76.1616 | 115 | 12 | 115 | 3 | 3 | 100.0000 | |
| 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 | I16_PLUS | * | het | 98.6061 | 97.7557 | 99.4715 | 72.8336 | 2657 | 61 | 2635 | 14 | 3 | 21.4286 | |
| hfeng-pmm3 | INDEL | I16_PLUS | HG002complexvar | hetalt | 96.8227 | 94.6269 | 99.1228 | 69.7613 | 317 | 18 | 339 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2415 | 98.7053 | 99.7836 | 77.2969 | 6023 | 79 | 5994 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6000 | 96.8254 | 98.3871 | 66.3227 | 610 | 20 | 610 | 10 | 3 | 30.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.0050 | 99.5000 | 98.5149 | 62.6617 | 199 | 1 | 199 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6815 | 95.5513 | 99.9088 | 57.5685 | 5477 | 255 | 5478 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6460 | 99.8227 | 99.4700 | 72.0632 | 563 | 1 | 563 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2346 | 98.7619 | 99.7118 | 60.6427 | 1037 | 13 | 1038 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m0_e0 | * | 98.7159 | 98.8950 | 98.5375 | 83.3079 | 537 | 6 | 539 | 8 | 3 | 37.5000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.8124 | 100.0000 | 97.6526 | 78.1089 | 208 | 0 | 208 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9903 | 98.7304 | 99.2515 | 81.3277 | 1322 | 17 | 1326 | 10 | 3 | 30.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.5197 | 100.0000 | 99.0440 | 78.7398 | 518 | 0 | 518 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9747 | 98.6842 | 99.2669 | 82.6860 | 1350 | 18 | 1354 | 10 | 3 | 30.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.5314 | 100.0000 | 99.0672 | 80.3663 | 531 | 0 | 531 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9946 | 98.7097 | 99.2811 | 82.7868 | 1377 | 18 | 1381 | 10 | 3 | 30.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 80.4869 | 540 | 0 | 540 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_siren | * | 99.4006 | 99.2346 | 99.5672 | 79.0750 | 2982 | 23 | 2991 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | INDEL | I1_5 | map_siren | homalt | 99.7534 | 99.9175 | 99.5898 | 76.7011 | 1211 | 1 | 1214 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1339 | 92.7126 | 97.6852 | 79.5455 | 229 | 18 | 211 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.3525 | 92.6174 | 96.1538 | 75.7009 | 138 | 11 | 125 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | map_siren | * | 96.6443 | 94.4262 | 98.9691 | 82.7607 | 288 | 17 | 288 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8555 | 99.7467 | 99.9646 | 71.3411 | 16932 | 43 | 16932 | 6 | 3 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8555 | 99.7467 | 99.9646 | 71.3411 | 16932 | 43 | 16932 | 6 | 3 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3317 | 98.8017 | 99.8674 | 38.4766 | 11296 | 137 | 11293 | 15 | 3 | 20.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9407 | 99.9259 | 99.9555 | 36.4048 | 6740 | 5 | 6740 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | het | 98.6931 | 98.4648 | 98.9225 | 88.7103 | 4682 | 73 | 4682 | 51 | 3 | 5.8824 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | het | 98.7752 | 98.5945 | 98.9565 | 89.0448 | 5121 | 73 | 5121 | 54 | 3 | 5.5556 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | het | 98.7819 | 98.5942 | 98.9703 | 89.1221 | 5190 | 74 | 5190 | 54 | 3 | 5.5556 | |
| hfeng-pmm3 | SNP | ti | HG002compoundhet | het | 96.8798 | 94.0768 | 99.8549 | 38.2659 | 8942 | 563 | 8944 | 13 | 3 | 23.0769 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9406 | 99.9208 | 99.9604 | 49.7187 | 10094 | 8 | 10094 | 4 | 3 | 75.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4191 | 98.9769 | 99.8654 | 39.1534 | 6675 | 69 | 6675 | 9 | 3 | 33.3333 | |