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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75701-75750 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.7099 | 99.7915 | 99.6285 | 54.4538 | 6702 | 14 | 6704 | 25 | 8 | 32.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7675 | 99.7915 | 99.7435 | 70.0911 | 6223 | 13 | 6223 | 16 | 12 | 75.0000 | |
| jmaeng-gatk | INDEL | I6_15 | * | homalt | 97.4945 | 99.7916 | 95.3008 | 55.3726 | 6226 | 13 | 6226 | 307 | 303 | 98.6971 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3220 | 99.7917 | 98.8568 | 68.8391 | 1437 | 3 | 1470 | 17 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6806 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| ckim-gatk | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | INDEL | * | segdup | homalt | 99.6878 | 99.7917 | 99.5842 | 93.1783 | 958 | 2 | 958 | 4 | 4 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | segdup | homalt | 99.6878 | 99.7917 | 99.5842 | 93.0376 | 958 | 2 | 958 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | * | segdup | homalt | 99.6360 | 99.7917 | 99.4808 | 93.2596 | 958 | 2 | 958 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6324 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| astatham-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.6623 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6878 | 99.7917 | 99.5842 | 69.2913 | 1437 | 3 | 1437 | 6 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.7134 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| ckim-vqsr | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.1612 | 99.7917 | 98.5386 | 73.9012 | 1437 | 3 | 1416 | 21 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8263 | 99.7917 | 99.8610 | 69.1268 | 1437 | 3 | 1437 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | ti | map_l125_m1_e0 | homalt | 99.8144 | 99.7918 | 99.8370 | 66.0308 | 11022 | 23 | 11022 | 18 | 8 | 44.4444 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7158 | 99.7919 | 99.6397 | 70.7329 | 30697 | 64 | 30697 | 111 | 106 | 95.4955 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 95.3327 | 99.7921 | 91.2548 | 72.8866 | 480 | 1 | 480 | 46 | 1 | 2.1739 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.8959 | 99.7921 | 100.0000 | 53.7572 | 480 | 1 | 480 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.8959 | 99.7921 | 100.0000 | 45.3303 | 480 | 1 | 480 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8787 | 99.7922 | 99.9653 | 69.1476 | 11528 | 24 | 11528 | 4 | 2 | 50.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8787 | 99.7922 | 99.9653 | 69.1476 | 11528 | 24 | 11528 | 4 | 2 | 50.0000 | |
| ckim-dragen | SNP | ti | segdup | het | 97.7495 | 99.7922 | 95.7888 | 93.1126 | 12005 | 25 | 12010 | 528 | 5 | 0.9470 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.6674 | 99.7924 | 99.5426 | 42.2165 | 6730 | 14 | 6747 | 31 | 2 | 6.4516 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4328 | 99.7924 | 99.0758 | 46.4998 | 6730 | 14 | 6754 | 63 | 6 | 9.5238 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e0 | homalt | 99.8100 | 99.7928 | 99.8273 | 69.0265 | 17339 | 36 | 17339 | 30 | 12 | 40.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.8449 | 99.7933 | 99.8965 | 69.7243 | 4827 | 10 | 4827 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | SNP | * | map_siren | homalt | 99.8648 | 99.7933 | 99.9364 | 52.2080 | 55042 | 114 | 55031 | 35 | 31 | 88.5714 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.8552 | 99.7933 | 99.9172 | 69.3872 | 4827 | 10 | 4827 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | tv | HG002compoundhet | homalt | 99.8081 | 99.7934 | 99.8228 | 43.2831 | 3381 | 7 | 3380 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | SNP | * | segdup | * | 99.7400 | 99.7934 | 99.6867 | 89.3409 | 28009 | 58 | 28003 | 88 | 11 | 12.5000 | |
| hfeng-pmm1 | SNP | tv | HG002compoundhet | homalt | 99.8229 | 99.7934 | 99.8523 | 42.7460 | 3381 | 7 | 3381 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | SNP | * | segdup | * | 99.5928 | 99.7934 | 99.3931 | 89.8391 | 28009 | 58 | 28003 | 171 | 10 | 5.8480 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7495 | 99.7934 | 99.7056 | 64.6549 | 966 | 2 | 1016 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | SNP | * | map_l100_m0_e0 | homalt | 99.8121 | 99.7935 | 99.8307 | 65.9910 | 11596 | 24 | 11205 | 19 | 8 | 42.1053 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8581 | 99.7937 | 99.9225 | 58.9725 | 3870 | 8 | 3870 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | SNP | tv | func_cds | * | 99.2038 | 99.7941 | 98.6205 | 39.0741 | 4362 | 9 | 4361 | 61 | 0 | 0.0000 | |
| ckim-gatk | SNP | tv | func_cds | * | 99.5776 | 99.7941 | 99.3620 | 38.5208 | 4362 | 9 | 4361 | 28 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8713 | 99.7942 | 99.9485 | 59.3783 | 3879 | 8 | 3879 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7947 | 99.7947 | 99.7947 | 67.0946 | 486 | 1 | 486 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8004 | 99.7947 | 99.8062 | 63.2740 | 486 | 1 | 515 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.6230 | 99.7947 | 86.4130 | 66.7870 | 486 | 1 | 477 | 75 | 70 | 93.3333 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e1 | homalt | 99.8117 | 99.7947 | 99.8288 | 69.0610 | 17496 | 36 | 17496 | 30 | 12 | 40.0000 | |
| ckim-dragen | INDEL | I1_5 | * | homalt | 99.5565 | 99.7948 | 99.3194 | 55.1956 | 60304 | 124 | 60271 | 413 | 409 | 99.0315 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | homalt | 99.8398 | 99.7949 | 99.8849 | 75.5076 | 11675 | 24 | 11277 | 13 | 8 | 61.5385 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5944 | 99.7950 | 99.3947 | 49.7872 | 2434 | 5 | 2463 | 15 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8769 | 99.7950 | 99.9589 | 49.0692 | 2434 | 5 | 2434 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | tv | map_l125_m1_e0 | homalt | 99.7867 | 99.7952 | 99.7782 | 67.3918 | 5848 | 12 | 5848 | 13 | 5 | 38.4615 | |
| hfeng-pmm2 | SNP | tv | map_l125_m1_e0 | homalt | 99.7782 | 99.7952 | 99.7612 | 67.4839 | 5848 | 12 | 5848 | 14 | 5 | 35.7143 | |