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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68101-68150 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.2605 | 87.6033 | 99.6988 | 46.7095 | 318 | 45 | 331 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | func_cds | het | 99.7366 | 99.7742 | 99.6990 | 44.6481 | 2651 | 6 | 2650 | 8 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2827 | 98.8697 | 99.6991 | 37.4429 | 4636 | 53 | 4639 | 14 | 4 | 28.5714 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5630 | 99.4272 | 99.6991 | 49.6904 | 3645 | 21 | 3645 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8306 | 94.1224 | 99.6991 | 48.9729 | 6950 | 434 | 6959 | 21 | 10 | 47.6190 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5176 | 97.3637 | 99.6992 | 42.0335 | 9270 | 251 | 9282 | 28 | 26 | 92.8571 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.6468 | 99.5944 | 99.6992 | 79.9741 | 6630 | 27 | 6628 | 20 | 11 | 55.0000 | |
| astatham-gatk | SNP | tv | map_l125_m2_e0 | * | 91.4434 | 84.4502 | 99.6992 | 76.7428 | 13925 | 2564 | 13923 | 42 | 14 | 33.3333 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4749 | 99.2515 | 99.6992 | 51.2106 | 1326 | 10 | 1326 | 4 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I1_5 | * | * | 99.2924 | 98.8889 | 99.6992 | 56.2734 | 148990 | 1674 | 149480 | 451 | 355 | 78.7140 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4716 | 97.2738 | 99.6993 | 39.0402 | 23871 | 669 | 23873 | 72 | 65 | 90.2778 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1734 | 98.6530 | 99.6994 | 37.5173 | 11279 | 154 | 11276 | 34 | 0 | 0.0000 | |
| gduggal-bwaplat | SNP | ti | * | * | 99.0047 | 98.3196 | 99.6994 | 24.2468 | 2050467 | 35044 | 2050804 | 6183 | 880 | 14.2326 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4163 | 99.1347 | 99.6996 | 67.2044 | 2635 | 23 | 2655 | 8 | 4 | 50.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m1_e0 | het | 96.2660 | 93.0610 | 99.6997 | 76.8718 | 1663 | 124 | 1660 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 54.7241 | 37.7119 | 99.6997 | 43.1741 | 356 | 588 | 332 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | homalt | 98.6994 | 97.7189 | 99.6997 | 86.4012 | 2656 | 62 | 2656 | 8 | 7 | 87.5000 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6531 | 97.6280 | 99.6999 | 67.5388 | 4651 | 113 | 4651 | 14 | 1 | 7.1429 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| ckim-isaac | SNP | * | map_l150_m2_e1 | * | 70.6272 | 54.6818 | 99.7000 | 78.0346 | 17613 | 14597 | 17614 | 53 | 14 | 26.4151 | |
| ckim-isaac | SNP | ti | map_l150_m0_e0 | * | 70.8651 | 54.9676 | 99.7000 | 80.5441 | 4321 | 3540 | 4321 | 13 | 3 | 23.0769 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e0 | het | 99.1915 | 98.6880 | 99.7001 | 70.3958 | 10305 | 137 | 10305 | 31 | 12 | 38.7097 | |
| hfeng-pmm1 | SNP | tv | map_l100_m1_e0 | het | 99.4603 | 99.2216 | 99.7001 | 64.9458 | 15297 | 120 | 15293 | 46 | 12 | 26.0870 | |
| cchapple-custom | INDEL | D1_5 | * | het | 99.5112 | 99.3229 | 99.7003 | 54.7900 | 86981 | 593 | 97146 | 292 | 149 | 51.0274 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.7005 | 99.7006 | 99.7004 | 54.6843 | 1332 | 4 | 1331 | 4 | 0 | 0.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6133 | 99.5263 | 99.7004 | 48.1016 | 3992 | 19 | 3993 | 12 | 3 | 25.0000 | |
| hfeng-pmm1 | SNP | tv | map_l100_m2_e0 | het | 99.4695 | 99.2394 | 99.7006 | 66.3242 | 15657 | 120 | 15653 | 47 | 12 | 25.5319 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5016 | 99.3035 | 99.7006 | 63.3236 | 998 | 7 | 999 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e0 | homalt | 99.2619 | 98.8270 | 99.7006 | 80.6936 | 337 | 4 | 333 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | map_l125_m0_e0 | * | 98.7976 | 97.9108 | 99.7006 | 72.0168 | 18980 | 405 | 18980 | 57 | 29 | 50.8772 | |
| rpoplin-dv42 | INDEL | D16_PLUS | * | homalt | 99.0482 | 98.4043 | 99.7006 | 63.9931 | 1665 | 27 | 1665 | 5 | 3 | 60.0000 | |
| ltrigg-rtg1 | SNP | * | map_l125_m2_e1 | het | 98.7345 | 97.7868 | 99.7007 | 62.3395 | 28984 | 656 | 28985 | 87 | 12 | 13.7931 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8366 | 99.9727 | 99.7008 | 51.3048 | 3665 | 1 | 3665 | 11 | 11 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | * | 99.4622 | 99.2247 | 99.7008 | 70.5014 | 30332 | 237 | 30328 | 91 | 25 | 27.4725 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.7381 | 99.7754 | 99.7008 | 54.7087 | 1333 | 3 | 1333 | 4 | 1 | 25.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 66.4548 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 66.4548 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 65.6624 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e0 | * | 99.4583 | 99.2167 | 99.7011 | 70.4657 | 30021 | 237 | 30017 | 90 | 25 | 27.7778 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2938 | 95.0000 | 99.7012 | 54.2527 | 2964 | 156 | 3003 | 9 | 8 | 88.8889 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6017 | 99.5025 | 99.7012 | 65.7688 | 1000 | 5 | 1001 | 3 | 2 | 66.6667 | |
| egarrison-hhga | SNP | * | map_l150_m1_e0 | het | 99.0911 | 98.4883 | 99.7013 | 74.4872 | 19024 | 292 | 19024 | 57 | 22 | 38.5965 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7622 | 99.8232 | 99.7013 | 32.7459 | 7342 | 13 | 7343 | 22 | 3 | 13.6364 | |
| ckim-dragen | SNP | * | * | * | 99.8268 | 99.9524 | 99.7015 | 21.8489 | 3053166 | 1453 | 3053731 | 9143 | 533 | 5.8296 | |
| asubramanian-gatk | SNP | tv | map_l125_m0_e0 | het | 37.0699 | 22.7676 | 99.7015 | 96.2071 | 1002 | 3399 | 1002 | 3 | 1 | 33.3333 | |
| qzeng-custom | SNP | * | func_cds | * | 99.7598 | 99.8182 | 99.7016 | 28.7413 | 18117 | 33 | 18040 | 54 | 4 | 7.4074 | |
| dgrover-gatk | INDEL | D1_5 | * | * | 99.6144 | 99.5271 | 99.7018 | 60.8244 | 146051 | 694 | 146107 | 437 | 317 | 72.5400 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3259 | 98.9526 | 99.7019 | 63.0961 | 17384 | 184 | 17391 | 52 | 20 | 38.4615 | |
| gduggal-bwafb | SNP | * | * | * | 99.7820 | 99.8619 | 99.7021 | 21.9848 | 3050417 | 4217 | 3050656 | 9115 | 775 | 8.5025 | |
| asubramanian-gatk | SNP | * | map_l150_m2_e0 | * | 40.2806 | 25.2386 | 99.7022 | 94.5086 | 8039 | 23813 | 8036 | 24 | 6 | 25.0000 | |