PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71951-72000 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | het | 97.5542 | 98.2093 | 96.9078 | 89.8378 | 1755 | 32 | 1755 | 56 | 8 | 14.2857 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6632 | 99.5223 | 99.8044 | 57.7539 | 28125 | 135 | 28578 | 56 | 39 | 69.6429 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 96.1629 | 97.2003 | 95.1473 | 85.5786 | 1111 | 32 | 1098 | 56 | 6 | 10.7143 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2092 | 97.2342 | 95.2055 | 85.6546 | 1125 | 32 | 1112 | 56 | 6 | 10.7143 | |
| cchapple-custom | INDEL | I16_PLUS | HG002compoundhet | homalt | 3.4483 | 100.0000 | 1.7544 | 69.5187 | 3 | 0 | 1 | 56 | 55 | 98.2143 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 0.0000 | 0.0000 | 25.3333 | 95.0166 | 0 | 0 | 19 | 56 | 7 | 12.5000 | |
| ciseli-custom | INDEL | D16_PLUS | HG002complexvar | het | 53.6535 | 38.4824 | 88.5714 | 55.2511 | 426 | 681 | 434 | 56 | 34 | 60.7143 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 71.0670 | 65.7439 | 77.3279 | 94.6386 | 190 | 99 | 191 | 56 | 18 | 32.1429 | |
| ciseli-custom | INDEL | C1_5 | HG002complexvar | het | 38.3292 | 28.5714 | 58.2090 | 91.1900 | 2 | 5 | 78 | 56 | 4 | 7.1429 | |
| ckim-dragen | SNP | tv | func_cds | * | 99.3521 | 99.9771 | 98.7347 | 37.1039 | 4370 | 1 | 4370 | 56 | 0 | 0.0000 | |
| ckim-dragen | SNP | tv | func_cds | het | 98.9383 | 99.9624 | 97.9351 | 42.1131 | 2656 | 1 | 2656 | 56 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | map_siren | * | 98.4771 | 98.8020 | 98.1543 | 83.2514 | 2969 | 36 | 2978 | 56 | 9 | 16.0714 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 25.0000 | 96.1577 | 0 | 0 | 19 | 57 | 8 | 14.0351 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1138 | 99.2021 | 95.1115 | 61.2625 | 1119 | 9 | 1109 | 57 | 18 | 31.5789 | |
| ckim-dragen | INDEL | * | map_l100_m0_e0 | het | 95.6303 | 96.7679 | 94.5192 | 88.5902 | 988 | 33 | 983 | 57 | 4 | 7.0175 | |
| ckim-gatk | INDEL | * | HG002compoundhet | hetalt | 95.5666 | 91.7156 | 99.7551 | 50.3022 | 23094 | 2086 | 23217 | 57 | 57 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5405 | 99.5949 | 99.4862 | 63.6798 | 11063 | 45 | 11037 | 57 | 16 | 28.0702 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 85.9154 | 76.4472 | 98.0606 | 64.1454 | 2879 | 887 | 2882 | 57 | 53 | 92.9825 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e1 | * | 74.1036 | 59.0623 | 99.4240 | 88.9166 | 9838 | 6819 | 9838 | 57 | 13 | 22.8070 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e1 | het | 78.9711 | 65.6022 | 99.1834 | 90.4624 | 6923 | 3630 | 6923 | 57 | 13 | 22.8070 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7872 | 99.8789 | 97.7191 | 41.8567 | 2475 | 3 | 2442 | 57 | 4 | 7.0175 | |
| eyeh-varpipe | SNP | tv | map_l250_m2_e0 | het | 98.3041 | 99.5361 | 97.1022 | 91.0806 | 1931 | 9 | 1910 | 57 | 4 | 7.0175 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.9324 | 95.1886 | 98.7412 | 44.6522 | 3482 | 176 | 4471 | 57 | 46 | 80.7018 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 54.9072 | 42.2449 | 78.4091 | 85.8369 | 207 | 283 | 207 | 57 | 28 | 49.1228 | |
| eyeh-varpipe | INDEL | I1_5 | map_siren | homalt | 96.7348 | 97.5248 | 95.9574 | 79.1173 | 1182 | 30 | 1353 | 57 | 49 | 85.9649 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.6918 | 90.6694 | 88.7352 | 58.9619 | 447 | 46 | 449 | 57 | 36 | 63.1579 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.7777 | 98.5185 | 82.4615 | 65.1288 | 266 | 4 | 268 | 57 | 36 | 63.1579 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 80.1285 | 70.1493 | 93.4180 | 55.0363 | 423 | 180 | 809 | 57 | 53 | 92.9825 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2360 | 99.6967 | 98.7794 | 42.1600 | 4602 | 14 | 4613 | 57 | 9 | 15.7895 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 93.8151 | 98.7552 | 89.3458 | 92.9596 | 476 | 6 | 478 | 57 | 4 | 7.0175 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9509 | 94.7199 | 99.2895 | 61.7800 | 7965 | 444 | 7965 | 57 | 48 | 84.2105 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4232 | 99.6886 | 99.1593 | 46.1734 | 6723 | 21 | 6723 | 57 | 1 | 1.7544 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.7080 | 99.9112 | 97.5335 | 63.5201 | 2250 | 2 | 2254 | 57 | 32 | 56.1404 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e0 | homalt | 99.1460 | 98.9147 | 99.3785 | 68.5946 | 9114 | 100 | 9114 | 57 | 40 | 70.1754 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6451 | 94.1259 | 97.2141 | 69.2007 | 2003 | 125 | 1989 | 57 | 51 | 89.4737 | |
| hfeng-pmm1 | INDEL | * | map_siren | * | 98.7669 | 98.3131 | 99.2250 | 80.4107 | 7285 | 125 | 7298 | 57 | 12 | 21.0526 | |
| jlack-gatk | INDEL | I1_5 | HG002complexvar | het | 99.5954 | 99.5052 | 99.6857 | 57.8787 | 18099 | 90 | 18080 | 57 | 28 | 49.1228 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.5882 | 99.5406 | 91.9378 | 72.4044 | 650 | 3 | 650 | 57 | 55 | 96.4912 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2883 | 99.8050 | 98.7768 | 40.6294 | 4607 | 9 | 4603 | 57 | 3 | 5.2632 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.0877 | 94.7254 | 99.5709 | 28.2155 | 13038 | 726 | 13226 | 57 | 56 | 98.2456 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0524 | 98.2806 | 99.8365 | 59.1178 | 34810 | 609 | 34800 | 57 | 5 | 8.7719 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 72.9858 | 100.0000 | 57.4627 | 71.8487 | 74 | 0 | 77 | 57 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8678 | 98.2992 | 99.4430 | 40.4688 | 10230 | 177 | 10177 | 57 | 24 | 42.1053 | |
| ndellapenna-hhga | SNP | * | map_l125_m0_e0 | * | 98.7976 | 97.9108 | 99.7006 | 72.0168 | 18980 | 405 | 18980 | 57 | 29 | 50.8772 | |
| qzeng-custom | INDEL | C16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 0.0000 | 0.0000 | 32.9412 | 0 | 0 | 0 | 57 | 0 | 0.0000 | ||
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.3080 | 97.8404 | 94.8229 | 62.8918 | 1042 | 23 | 1044 | 57 | 53 | 92.9825 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | homalt | 74.4541 | 65.8301 | 85.6784 | 74.7141 | 341 | 177 | 341 | 57 | 55 | 96.4912 | |