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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71051-71100 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.9121 | 99.5122 | 94.4444 | 91.3008 | 204 | 1 | 204 | 12 | 10 | 83.3333 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0986 | 94.3750 | 95.8333 | 89.6403 | 151 | 9 | 138 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.4721 | 99.6475 | 99.2974 | 88.2757 | 848 | 3 | 848 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.5020 | 99.5471 | 99.4570 | 86.4067 | 1099 | 5 | 1099 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.8449 | 99.8139 | 99.8759 | 69.1925 | 4828 | 9 | 4828 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | homalt | 99.5462 | 99.3118 | 99.7817 | 72.6486 | 2742 | 19 | 2742 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | SNP | tv | HG002complexvar | homalt | 99.9663 | 99.9453 | 99.9874 | 22.7972 | 95059 | 52 | 95044 | 12 | 10 | 83.3333 | |
| cchapple-custom | INDEL | * | map_l125_m2_e1 | homalt | 98.2393 | 97.2868 | 99.2105 | 85.0600 | 753 | 21 | 754 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | * | map_l150_m2_e1 | homalt | 97.8487 | 96.9512 | 98.7629 | 87.9353 | 477 | 15 | 479 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | C16_PLUS | * | * | 0.0000 | 0.0000 | 89.8305 | 95.8245 | 0 | 0 | 53 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | C16_PLUS | * | het | 0.0000 | 0.0000 | 84.6154 | 96.1155 | 0 | 0 | 33 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | C16_PLUS | HG002complexvar | * | 0.0000 | 0.0000 | 89.8305 | 89.5390 | 0 | 0 | 53 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | C16_PLUS | HG002complexvar | het | 0.0000 | 0.0000 | 84.6154 | 90.1515 | 0 | 0 | 33 | 6 | 5 | 83.3333 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1342 | 96.9891 | 99.3066 | 64.2892 | 5154 | 160 | 5156 | 36 | 30 | 83.3333 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.4123 | 91.4179 | 97.6096 | 63.6495 | 490 | 46 | 490 | 12 | 10 | 83.3333 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9888 | 96.2435 | 99.7985 | 65.0879 | 2972 | 116 | 2972 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002complexvar | homalt | 98.1002 | 98.2699 | 97.9310 | 75.1286 | 284 | 5 | 284 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4314 | 95.4545 | 99.4920 | 57.5943 | 1176 | 56 | 1175 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7619 | 98.0695 | 95.4887 | 59.2649 | 254 | 5 | 254 | 12 | 10 | 83.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.8617 | 94.4882 | 95.2381 | 52.2727 | 120 | 7 | 120 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.0080 | 93.7143 | 98.4169 | 35.2137 | 328 | 22 | 373 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.1429 | 100.0000 | 94.4444 | 62.8866 | 102 | 0 | 102 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.6621 | 78.3888 | 99.4236 | 31.5582 | 1012 | 279 | 1035 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.3273 | 91.1635 | 99.8897 | 40.2875 | 5375 | 521 | 5435 | 6 | 5 | 83.3333 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.3273 | 91.1635 | 99.8897 | 40.2875 | 5375 | 521 | 5435 | 6 | 5 | 83.3333 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | homalt | 99.9010 | 99.9151 | 99.8868 | 59.4114 | 10589 | 9 | 10593 | 12 | 10 | 83.3333 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 95.1973 | 91.2471 | 99.5050 | 29.3294 | 1178 | 113 | 1206 | 6 | 5 | 83.3333 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.3541 | 96.3636 | 98.3651 | 75.9186 | 371 | 14 | 361 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0769 | 100.0000 | 96.2264 | 77.1879 | 153 | 0 | 153 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | homalt | 99.0385 | 100.0000 | 98.0952 | 70.1139 | 309 | 0 | 309 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0769 | 100.0000 | 96.2264 | 77.0893 | 153 | 0 | 153 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7476 | 95.6863 | 99.8995 | 66.9763 | 5967 | 269 | 5967 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002complexvar | homalt | 99.0385 | 100.0000 | 98.0952 | 70.2550 | 309 | 0 | 309 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.4615 | 100.0000 | 79.3103 | 87.8661 | 23 | 0 | 23 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.3941 | 92.5121 | 98.4615 | 73.8956 | 383 | 31 | 384 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9480 | 99.9257 | 99.9703 | 57.5983 | 20184 | 15 | 20184 | 6 | 5 | 83.3333 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | homalt | 99.7933 | 99.7639 | 99.8228 | 43.5008 | 3380 | 8 | 3380 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | * | * | hetalt | 96.7703 | 93.7869 | 99.9498 | 57.3944 | 23669 | 1568 | 23894 | 12 | 10 | 83.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.4704 | 93.2214 | 99.9539 | 31.0883 | 12831 | 933 | 13019 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.4523 | 93.1870 | 99.9548 | 33.8499 | 13076 | 956 | 13269 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.8832 | 98.9837 | 98.7830 | 57.7187 | 487 | 5 | 487 | 6 | 5 | 83.3333 | |
| hfeng-pmm3 | INDEL | I16_PLUS | HG002complexvar | homalt | 99.0385 | 100.0000 | 98.0952 | 69.9140 | 309 | 0 | 309 | 6 | 5 | 83.3333 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1031 | 98.9474 | 93.4177 | 83.9735 | 1316 | 14 | 1107 | 78 | 65 | 83.3333 | |
| ckim-gatk | INDEL | I1_5 | * | hetalt | 95.6301 | 91.6749 | 99.9419 | 60.1212 | 10263 | 932 | 10325 | 6 | 5 | 83.3333 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | het | 99.2569 | 98.9103 | 99.6060 | 59.0976 | 3086 | 34 | 3034 | 12 | 10 | 83.3333 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.2751 | 96.4259 | 98.1395 | 51.6854 | 1268 | 47 | 1266 | 24 | 20 | 83.3333 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8266 | 95.4876 | 98.2036 | 81.6484 | 656 | 31 | 656 | 12 | 10 | 83.3333 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m1_e0 | homalt | 98.8406 | 98.8417 | 98.8395 | 79.6936 | 512 | 6 | 511 | 6 | 5 | 83.3333 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e0 | homalt | 98.8690 | 98.8701 | 98.8679 | 81.2057 | 525 | 6 | 524 | 6 | 5 | 83.3333 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e1 | homalt | 98.8879 | 98.8889 | 98.8868 | 81.3172 | 534 | 6 | 533 | 6 | 5 | 83.3333 | |