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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50251-50300 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6910 | 99.5997 | 97.7987 | 75.1563 | 1244 | 5 | 1244 | 28 | 22 | 78.5714 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 90.9091 | 83.3333 | 100.0000 | 76.7241 | 25 | 5 | 27 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.6239 | 98.8506 | 98.3982 | 70.2519 | 430 | 5 | 430 | 7 | 4 | 57.1429 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0301 | 99.8948 | 98.1803 | 50.4508 | 4748 | 5 | 4748 | 88 | 87 | 98.8636 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.3478 | 98.9177 | 99.7817 | 27.8740 | 457 | 5 | 457 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 78.2609 | 64.2857 | 100.0000 | 95.5224 | 9 | 5 | 9 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3232 | 99.1554 | 99.4915 | 83.5517 | 587 | 5 | 587 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 84.1571 | 606 | 5 | 606 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 84.2025 | 615 | 5 | 615 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m0_e0 | het | 94.2584 | 97.5248 | 91.2037 | 94.9907 | 197 | 5 | 197 | 19 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.3783 | 98.4848 | 96.2963 | 75.6574 | 325 | 5 | 312 | 12 | 6 | 50.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 97.5038 | 96.4789 | 98.5507 | 45.6693 | 137 | 5 | 136 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 96.1832 | 92.6471 | 100.0000 | 73.9669 | 63 | 5 | 63 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e0 | het | 94.7368 | 96.1832 | 93.3333 | 92.5456 | 126 | 5 | 126 | 9 | 2 | 22.2222 | |
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 96.1832 | 92.6471 | 100.0000 | 75.2941 | 63 | 5 | 63 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | map_l100_m2_e1 | het | 94.8905 | 96.2963 | 93.5252 | 92.4743 | 130 | 5 | 130 | 9 | 2 | 22.2222 | |
| ckim-vqsr | INDEL | D6_15 | map_l125_m1_e0 | * | 96.1373 | 95.7265 | 96.5517 | 92.8129 | 112 | 5 | 112 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | segdup | hetalt | 94.6237 | 89.7959 | 100.0000 | 90.4968 | 44 | 5 | 44 | 0 | 0 | ||
| ckim-vqsr | INDEL | I16_PLUS | * | homalt | 97.7080 | 99.6797 | 95.8128 | 71.8495 | 1556 | 5 | 1556 | 68 | 67 | 98.5294 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.3805 | 89.3617 | 97.7778 | 82.0000 | 42 | 5 | 44 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8621 | 98.2332 | 93.6027 | 69.8477 | 278 | 5 | 278 | 19 | 19 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5070 | 99.8586 | 99.1578 | 72.7530 | 3532 | 5 | 3532 | 30 | 30 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.3592 | 98.9362 | 99.7859 | 69.6359 | 465 | 5 | 466 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m2_e0 | * | 94.7368 | 95.5752 | 93.9130 | 97.5385 | 108 | 5 | 108 | 7 | 1 | 14.2857 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m2_e0 | het | 91.7293 | 92.4242 | 91.0448 | 98.1295 | 61 | 5 | 61 | 6 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m2_e1 | * | 94.7826 | 95.6140 | 93.9655 | 97.5904 | 109 | 5 | 109 | 7 | 1 | 14.2857 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m2_e1 | het | 91.7293 | 92.4242 | 91.0448 | 98.1892 | 61 | 5 | 61 | 6 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | HG002compoundhet | het | 86.6987 | 97.5962 | 77.9904 | 84.7889 | 203 | 5 | 163 | 46 | 45 | 97.8261 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m1_e0 | * | 94.1176 | 90.5660 | 97.9592 | 93.5948 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m2_e0 | * | 94.1176 | 90.5660 | 97.9592 | 94.3353 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | map_l125_m2_e1 | * | 94.1176 | 90.5660 | 97.9592 | 94.4758 | 48 | 5 | 48 | 1 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 93.5065 | 87.8049 | 100.0000 | 93.1818 | 36 | 5 | 36 | 0 | 0 | ||
| ckim-vqsr | SNP | * | map_l250_m2_e0 | hetalt | 0.0000 | 100.0000 | 0 | 5 | 0 | 0 | 0 | ||||
| ckim-vqsr | SNP | * | map_l250_m2_e1 | hetalt | 0.0000 | 100.0000 | 0 | 5 | 0 | 0 | 0 | ||||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3873 | 147 | 5 | 147 | 2 | 2 | 100.0000 | |
| ckim-vqsr | 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-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 93.8462 | 92.4242 | 95.3125 | 93.8402 | 61 | 5 | 61 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 92.3077 | 85.7143 | 100.0000 | 93.1350 | 30 | 5 | 30 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | segdup | homalt | 99.4792 | 99.4792 | 99.4792 | 93.5414 | 955 | 5 | 955 | 5 | 5 | 100.0000 | |
| egarrison-hhga | INDEL | C1_5 | HG002complexvar | * | 28.5714 | 100.0000 | 2 | 5 | 0 | 0 | 0 | ||||
| egarrison-hhga | INDEL | C1_5 | HG002complexvar | het | 28.5714 | 100.0000 | 2 | 5 | 0 | 0 | 0 | ||||
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m0_e0 | * | 82.4496 | 82.1429 | 82.7586 | 90.9375 | 23 | 5 | 24 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 92.7536 | 86.4865 | 100.0000 | 86.9748 | 32 | 5 | 31 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 78.2609 | 64.2857 | 100.0000 | 95.1087 | 9 | 5 | 9 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.1935 | 99.1935 | 99.1935 | 83.6066 | 615 | 5 | 615 | 5 | 4 | 80.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.2767 | 96.0630 | 90.6475 | 74.0187 | 122 | 5 | 126 | 13 | 7 | 53.8462 | |
| egarrison-hhga | INDEL | D6_15 | map_l150_m1_e0 | * | 94.5007 | 93.1507 | 95.8904 | 90.7828 | 68 | 5 | 70 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_l150_m2_e0 | * | 95.1063 | 93.9024 | 96.3415 | 90.6712 | 77 | 5 | 79 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_siren | homalt | 96.8992 | 96.1538 | 97.6562 | 81.7404 | 125 | 5 | 125 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 90.9953 | 85.7143 | 96.9697 | 69.4444 | 30 | 5 | 32 | 1 | 1 | 100.0000 | |