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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64751-64800 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.9371 | 98.3926 | 99.4876 | 27.8052 | 1163 | 19 | 1165 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5305 | 99.7647 | 99.2974 | 52.1032 | 848 | 2 | 848 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.3061 | 95.4603 | 99.2248 | 24.1920 | 757 | 36 | 768 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | * | het | 98.7584 | 98.3444 | 99.1760 | 75.9243 | 2673 | 45 | 2648 | 22 | 6 | 27.2727 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.0000 | 100.0000 | 78.5714 | 85.0267 | 22 | 0 | 22 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5033 | 96.1905 | 98.8525 | 65.9408 | 606 | 24 | 603 | 7 | 6 | 85.7143 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m1_e0 | * | 96.6727 | 96.2651 | 97.0838 | 86.5742 | 799 | 31 | 799 | 24 | 6 | 25.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m2_e0 | * | 96.7213 | 96.3827 | 97.0623 | 87.8080 | 826 | 31 | 826 | 25 | 6 | 24.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l125_m2_e1 | * | 96.7147 | 96.4368 | 96.9942 | 87.9173 | 839 | 31 | 839 | 26 | 6 | 23.0769 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5612 | 97.7676 | 99.3678 | 76.3607 | 1927 | 44 | 1886 | 12 | 6 | 50.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5612 | 97.7676 | 99.3678 | 76.3607 | 1927 | 44 | 1886 | 12 | 6 | 50.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3982 | 99.5370 | 97.2851 | 67.4041 | 215 | 1 | 215 | 6 | 6 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2827 | 98.9017 | 99.6667 | 74.9583 | 3872 | 43 | 3887 | 13 | 6 | 46.1538 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.7859 | 99.8680 | 99.7039 | 39.7224 | 18159 | 24 | 18186 | 54 | 6 | 11.1111 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3065 | 99.4444 | 99.1690 | 87.5731 | 716 | 4 | 716 | 6 | 6 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1580 | 99.2264 | 99.0896 | 88.0562 | 1411 | 11 | 1415 | 13 | 6 | 46.1538 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.3959 | 99.1682 | 99.6246 | 82.9296 | 2623 | 22 | 2654 | 10 | 6 | 60.0000 | |
| ckim-dragen | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7412 | 99.7085 | 99.7738 | 68.8882 | 3079 | 9 | 3088 | 7 | 6 | 85.7143 | |
| ckim-dragen | SNP | tv | map_l150_m0_e0 | homalt | 99.2838 | 99.1717 | 99.3962 | 72.8817 | 1317 | 11 | 1317 | 8 | 6 | 75.0000 | |
| ckim-dragen | SNP | tv | segdup | * | 98.3491 | 99.8476 | 96.8949 | 93.2025 | 8519 | 13 | 8519 | 273 | 6 | 2.1978 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.2092 | 94.7800 | 99.7663 | 39.0116 | 2542 | 140 | 2561 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 84.2531 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| ckim-gatk | INDEL | * | map_l100_m2_e0 | homalt | 99.1677 | 99.2070 | 99.1284 | 85.1721 | 1251 | 10 | 1251 | 11 | 6 | 54.5455 | |
| ckim-gatk | INDEL | * | map_l100_m2_e1 | homalt | 99.1806 | 99.2194 | 99.1420 | 85.1980 | 1271 | 10 | 1271 | 11 | 6 | 54.5455 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| ckim-gatk | INDEL | * | map_l150_m1_e0 | het | 93.9968 | 98.4795 | 89.9044 | 93.5685 | 842 | 13 | 846 | 95 | 6 | 6.3158 | |
| ckim-gatk | INDEL | * | map_l150_m2_e0 | het | 94.2693 | 98.5651 | 90.3323 | 93.9690 | 893 | 13 | 897 | 96 | 6 | 6.2500 | |
| ckim-gatk | INDEL | * | map_l150_m2_e1 | het | 94.3211 | 98.4848 | 90.4950 | 93.9981 | 910 | 14 | 914 | 96 | 6 | 6.2500 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0078 | 98.8530 | 99.1632 | 72.8794 | 948 | 11 | 948 | 8 | 6 | 75.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0438 | 99.1729 | 93.1061 | 88.7944 | 1199 | 10 | 1202 | 89 | 6 | 6.7416 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 96.1099 | 99.1242 | 93.2735 | 89.2977 | 1245 | 11 | 1248 | 90 | 6 | 6.6667 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 96.1455 | 99.1325 | 93.3333 | 89.3667 | 1257 | 11 | 1260 | 90 | 6 | 6.6667 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 96.0274 | 98.7132 | 93.4839 | 90.1867 | 1074 | 14 | 1076 | 75 | 6 | 8.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1316 | 98.7752 | 93.6258 | 90.6812 | 1129 | 14 | 1131 | 77 | 6 | 7.7922 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.1771 | 98.7900 | 93.6989 | 90.7298 | 1143 | 14 | 1145 | 77 | 6 | 7.7922 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.0477 | 98.4576 | 91.8660 | 92.3764 | 766 | 12 | 768 | 68 | 6 | 8.8235 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6785 | 97.8849 | 99.4850 | 27.6398 | 1157 | 25 | 1159 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2401 | 95.3342 | 99.2238 | 23.4653 | 756 | 37 | 767 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | * | hetalt | 95.7167 | 92.0877 | 99.6434 | 54.9150 | 1932 | 166 | 1956 | 7 | 6 | 85.7143 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 91.9540 | 97.5610 | 86.9565 | 88.1748 | 40 | 1 | 40 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5365 | 98.0213 | 99.0571 | 76.1911 | 1932 | 39 | 1891 | 18 | 6 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.8889 | 100.0000 | 80.0000 | 79.4521 | 24 | 0 | 24 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5365 | 98.0213 | 99.0571 | 76.1911 | 1932 | 39 | 1891 | 18 | 6 | 33.3333 | |
| ckim-gatk | SNP | ti | HG002compoundhet | homalt | 99.4702 | 99.0262 | 99.9181 | 30.6914 | 7322 | 72 | 7322 | 6 | 6 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3045 | 99.1512 | 99.4582 | 87.3902 | 1285 | 11 | 1285 | 7 | 6 | 85.7143 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2958 | 99.4125 | 99.1794 | 88.4605 | 846 | 5 | 846 | 7 | 6 | 85.7143 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4064 | 99.2885 | 99.5246 | 88.1335 | 1256 | 9 | 1256 | 6 | 6 | 100.0000 | |
| ckim-gatk | SNP | tv | segdup | * | 98.7820 | 99.3671 | 98.2037 | 94.6419 | 8478 | 54 | 8474 | 155 | 6 | 3.8710 | |
| ckim-gatk | SNP | tv | segdup | homalt | 99.5043 | 99.1970 | 99.8135 | 89.9144 | 3212 | 26 | 3212 | 6 | 6 | 100.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 89.3587 | 81.9106 | 98.2968 | 40.7781 | 403 | 89 | 404 | 7 | 6 | 85.7143 | |