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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30001-30050 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | * | map_l125_m2_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l125_m2_e1 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2863 | 99.7441 | 96.8705 | 43.6595 | 4677 | 12 | 4674 | 151 | 1 | 0.6623 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7820 | 99.5649 | 100.0000 | 36.1989 | 2746 | 12 | 2746 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l125_m1_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 91.3462 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l125_m2_e0 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l125_m2_e1 | hetalt | 75.0000 | 60.0000 | 100.0000 | 92.8854 | 18 | 12 | 18 | 0 | 0 | ||
| ckim-isaac | INDEL | * | map_l125_m2_e1 | hetalt | 81.4312 | 72.0930 | 93.5484 | 92.4939 | 31 | 12 | 29 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l250_m1_e0 | het | 90.8928 | 93.6842 | 88.2629 | 95.8219 | 178 | 12 | 188 | 25 | 2 | 8.0000 | |
| cchapple-custom | INDEL | * | map_l250_m2_e0 | het | 91.3070 | 94.2857 | 88.5106 | 96.0027 | 198 | 12 | 208 | 27 | 2 | 7.4074 | |
| cchapple-custom | INDEL | * | map_l250_m2_e1 | het | 91.3456 | 94.3128 | 88.5593 | 96.0927 | 199 | 12 | 209 | 27 | 2 | 7.4074 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 78.9238 | 72.7273 | 86.2745 | 96.2583 | 32 | 12 | 44 | 7 | 3 | 42.8571 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8767 | 99.8821 | 99.8712 | 51.6311 | 10166 | 12 | 10084 | 13 | 11 | 84.6154 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.6596 | 99.6701 | 97.6694 | 53.9900 | 3626 | 12 | 3604 | 86 | 85 | 98.8372 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.9533 | 99.6209 | 96.3407 | 45.9172 | 3153 | 12 | 3133 | 119 | 118 | 99.1597 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 0.0000 | 82.3529 | 0.0000 | 0.0000 | 56 | 12 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 0.0000 | 82.3529 | 0.0000 | 0.0000 | 56 | 12 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 95.6989 | 0.0000 | 0.0000 | 267 | 12 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2719 | 98.7603 | 99.7888 | 58.8261 | 956 | 12 | 945 | 2 | 2 | 100.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.9979 | 94.5701 | 99.5536 | 89.9281 | 209 | 12 | 223 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8504 | 99.8290 | 99.8718 | 59.4899 | 7007 | 12 | 7011 | 9 | 6 | 66.6667 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 12 | 0 | 0 | 0 | |||
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | hetalt | 0.0000 | 7.6923 | 0.0000 | 0.0000 | 1 | 12 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | map_l250_m2_e0 | * | 51.2821 | 45.4545 | 58.8235 | 97.9858 | 10 | 12 | 10 | 7 | 2 | 28.5714 | |
| ciseli-custom | INDEL | D6_15 | map_l250_m2_e1 | * | 50.0000 | 45.4545 | 55.5556 | 97.9167 | 10 | 12 | 10 | 8 | 2 | 25.0000 | |
| ciseli-custom | INDEL | I16_PLUS | func_cds | * | 0.0000 | 100.0000 | 0 | 12 | 0 | 0 | 0 | ||||
| ciseli-custom | INDEL | I1_5 | func_cds | homalt | 91.8455 | 89.9160 | 93.8596 | 19.1489 | 107 | 12 | 107 | 7 | 6 | 85.7143 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 59.2593 | 66.6667 | 53.3333 | 64.0000 | 24 | 12 | 24 | 21 | 20 | 95.2381 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 7.6923 | 100.0000 | 1 | 12 | 0 | 0 | 0 | ||||
| ciseli-custom | INDEL | I6_15 | map_l125_m0_e0 | * | 31.5789 | 20.0000 | 75.0000 | 96.2264 | 3 | 12 | 3 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m1_e0 | homalt | 30.0000 | 20.0000 | 60.0000 | 91.3793 | 3 | 12 | 3 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m2_e0 | homalt | 30.0000 | 20.0000 | 60.0000 | 92.7536 | 3 | 12 | 3 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l125_m2_e1 | homalt | 30.0000 | 20.0000 | 60.0000 | 92.8571 | 3 | 12 | 3 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | I6_15 | map_l150_m1_e0 | het | 33.3333 | 20.0000 | 100.0000 | 97.1429 | 3 | 12 | 3 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | map_l150_m2_e0 | het | 33.3333 | 20.0000 | 100.0000 | 97.5806 | 3 | 12 | 3 | 0 | 0 | ||
| ckim-dragen | SNP | ti | segdup | homalt | 99.9000 | 99.8401 | 99.9600 | 86.9440 | 7493 | 12 | 7493 | 3 | 3 | 100.0000 | |
| ckim-dragen | SNP | tv | segdup | het | 97.4236 | 99.7730 | 95.1822 | 94.3912 | 5275 | 12 | 5275 | 267 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5663 | 99.6000 | 99.5327 | 76.7518 | 2988 | 12 | 2982 | 14 | 4 | 28.5714 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7401 | 99.6720 | 99.8083 | 54.5545 | 3646 | 12 | 3645 | 7 | 2 | 28.5714 | |
| ckim-gatk | INDEL | * | segdup | het | 96.8043 | 99.1814 | 94.5384 | 96.5594 | 1454 | 12 | 1454 | 84 | 1 | 1.1905 | |
| ckim-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.3088 | 98.9160 | 97.7090 | 68.8770 | 1095 | 12 | 853 | 20 | 10 | 50.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.0477 | 98.4576 | 91.8660 | 92.3764 | 766 | 12 | 768 | 68 | 6 | 8.8235 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m2_e1 | * | 95.6364 | 95.6364 | 95.6364 | 89.5556 | 263 | 12 | 263 | 12 | 2 | 16.6667 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5645 | 99.8024 | 99.3278 | 58.3031 | 6060 | 12 | 6058 | 41 | 41 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.8778 | 94.5946 | 97.1963 | 63.5434 | 210 | 12 | 208 | 6 | 5 | 83.3333 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.7699 | 98.6301 | 94.9785 | 83.2774 | 864 | 12 | 662 | 35 | 33 | 94.2857 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.4762 | 82.6087 | 100.0000 | 56.3910 | 57 | 12 | 58 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.1559 | 97.0803 | 99.2556 | 71.4387 | 399 | 12 | 400 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m1_e0 | het | 96.3064 | 97.5104 | 95.1318 | 90.1420 | 470 | 12 | 469 | 24 | 2 | 8.3333 | |