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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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82651-82700 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.9405 | 96.8326 | 99.0741 | 91.0854 | 214 | 7 | 214 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 98.0132 | 97.3684 | 98.6667 | 91.3345 | 148 | 4 | 148 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7720 | 99.5863 | 99.9585 | 72.9893 | 2407 | 10 | 2407 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5260 | 99.0651 | 99.9913 | 63.9562 | 11444 | 108 | 11444 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7953 | 99.6820 | 99.9089 | 42.1496 | 2194 | 7 | 2194 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.8776 | 91.0891 | 96.8421 | 93.5680 | 92 | 9 | 92 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6565 | 93.9394 | 95.3846 | 93.7500 | 62 | 4 | 62 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7545 | 99.6496 | 99.8596 | 26.6735 | 1422 | 5 | 1422 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m1_e0 | hetalt | 80.0000 | 68.9655 | 95.2381 | 87.2727 | 20 | 9 | 20 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 80.7692 | 70.0000 | 95.4545 | 88.0435 | 21 | 9 | 21 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 81.4815 | 70.9677 | 95.6522 | 87.5676 | 22 | 9 | 22 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l150_m0_e0 | homalt | 65.8246 | 49.0764 | 99.9263 | 84.8914 | 1355 | 1406 | 1355 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_siren | hetalt | 87.6190 | 80.7018 | 95.8333 | 80.9524 | 46 | 11 | 46 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | ti | segdup | homalt | 99.4711 | 98.9873 | 99.9596 | 87.8310 | 7429 | 76 | 7429 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 44.8052 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | tech_badpromoters | homalt | 98.7952 | 100.0000 | 97.6190 | 41.6667 | 41 | 0 | 41 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | HG002complexvar | hetalt | 98.0328 | 96.4516 | 99.6667 | 39.8798 | 299 | 11 | 299 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7369 | 99.5048 | 99.9701 | 61.6836 | 10047 | 50 | 10047 | 3 | 3 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6208 | 99.3177 | 99.9258 | 72.3505 | 5386 | 37 | 5386 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4059 | 99.0138 | 99.8012 | 86.2267 | 502 | 5 | 502 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4064 | 99.2885 | 99.5246 | 88.1335 | 1256 | 9 | 1256 | 6 | 6 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3703 | 99.3703 | 99.3703 | 89.2862 | 789 | 5 | 789 | 5 | 5 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4652 | 99.1471 | 99.7854 | 85.4602 | 465 | 4 | 465 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 79.6677 | 1492 | 6 | 1492 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6208 | 99.3177 | 99.9258 | 72.3505 | 5386 | 37 | 5386 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7448 | 99.5473 | 99.9432 | 60.9323 | 1759 | 8 | 1759 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.6646 | 99.3826 | 99.9483 | 59.5457 | 3863 | 24 | 3863 | 2 | 2 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | hetalt | 78.2609 | 65.8537 | 96.4286 | 89.0625 | 27 | 14 | 27 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m2_e0 | hetalt | 78.8732 | 66.6667 | 96.5517 | 90.1024 | 28 | 14 | 28 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | segdup | homalt | 99.5043 | 99.1970 | 99.8135 | 89.9144 | 3212 | 26 | 3212 | 6 | 6 | 100.0000 | |
| ckim-gatk | SNP | tv | tech_badpromoters | * | 97.9021 | 97.2222 | 98.5915 | 53.2895 | 70 | 2 | 70 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 51.8519 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l100_m0_e0 | hetalt | 82.6291 | 72.7273 | 95.6522 | 89.6396 | 24 | 9 | 22 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l100_m1_e0 | hetalt | 75.4294 | 62.0968 | 96.0526 | 85.1852 | 77 | 47 | 73 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l100_m2_e0 | hetalt | 75.0774 | 61.6000 | 96.1039 | 86.5854 | 77 | 48 | 74 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l100_m2_e1 | hetalt | 74.9736 | 61.3636 | 96.3415 | 86.1252 | 81 | 51 | 79 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l125_m1_e0 | hetalt | 83.1683 | 75.0000 | 93.3333 | 91.0448 | 30 | 10 | 28 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l125_m2_e0 | hetalt | 82.5149 | 73.8095 | 93.5484 | 92.2693 | 31 | 11 | 29 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l125_m2_e1 | hetalt | 81.4312 | 72.0930 | 93.5484 | 92.4939 | 31 | 12 | 29 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m0_e0 | * | 70.4918 | 55.1282 | 97.7273 | 98.2952 | 43 | 35 | 43 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m0_e0 | het | 75.8621 | 62.2642 | 97.0588 | 98.4760 | 33 | 20 | 33 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m1_e0 | * | 65.7952 | 49.5082 | 98.0519 | 96.9691 | 151 | 154 | 151 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m1_e0 | het | 69.6080 | 54.2105 | 97.2222 | 97.4636 | 103 | 87 | 105 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m2_e0 | * | 66.1323 | 49.8489 | 98.2143 | 97.1370 | 165 | 166 | 165 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m2_e0 | het | 69.7358 | 54.2857 | 97.4790 | 97.5555 | 114 | 96 | 116 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m2_e1 | * | 66.1355 | 49.8498 | 98.2249 | 97.1927 | 166 | 167 | 166 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m2_e1 | het | 69.5232 | 54.0284 | 97.4790 | 97.6119 | 114 | 97 | 116 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | * | segdup | hetalt | 89.9263 | 82.3077 | 99.0991 | 92.8479 | 107 | 23 | 110 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | D16_PLUS | func_cds | het | 50.0000 | 37.5000 | 75.0000 | 50.0000 | 3 | 5 | 3 | 1 | 1 | 100.0000 | |