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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19801-19850 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0035 | 98.2095 | 95.8267 | 71.5438 | 2962 | 54 | 3008 | 131 | 4 | 3.0534 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m1_e0 | het | 98.0069 | 98.2094 | 97.8052 | 85.5214 | 713 | 13 | 713 | 16 | 3 | 18.7500 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | het | 85.4186 | 98.2094 | 75.5757 | 89.1583 | 713 | 13 | 919 | 297 | 91 | 30.6397 | |
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | het | 97.5542 | 98.2093 | 96.9078 | 89.8378 | 1755 | 32 | 1755 | 56 | 8 | 14.2857 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.8470 | 98.2089 | 99.4934 | 48.2524 | 2906 | 53 | 2946 | 15 | 4 | 26.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4946 | 98.2087 | 98.7822 | 76.6731 | 6305 | 115 | 6246 | 77 | 38 | 49.3506 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4946 | 98.2087 | 98.7822 | 76.6731 | 6305 | 115 | 6246 | 77 | 38 | 49.3506 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.0939 | 98.2086 | 96.0042 | 48.3222 | 4605 | 84 | 4613 | 192 | 8 | 4.1667 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.7398 | 98.2079 | 99.2775 | 83.4529 | 1370 | 25 | 1374 | 10 | 4 | 40.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m2_e1 | * | 98.6318 | 98.2079 | 99.0593 | 84.2255 | 1370 | 25 | 1369 | 13 | 3 | 23.0769 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.6138 | 98.2076 | 99.0233 | 82.7345 | 1315 | 24 | 1318 | 13 | 6 | 46.1538 | |
| jpowers-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8917 | 98.2074 | 97.5780 | 64.8285 | 17531 | 320 | 17606 | 437 | 24 | 5.4920 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e1 | het | 96.1817 | 98.2074 | 94.2378 | 90.6863 | 2301 | 42 | 2306 | 141 | 14 | 9.9291 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.3982 | 98.2071 | 92.7456 | 62.2313 | 2684 | 49 | 2672 | 209 | 198 | 94.7368 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0792 | 98.2071 | 95.9770 | 63.3202 | 2684 | 49 | 2672 | 112 | 106 | 94.6429 | |
| anovak-vg | SNP | tv | * | het | 97.9352 | 98.2070 | 97.6649 | 27.4537 | 581095 | 10609 | 580225 | 13873 | 4566 | 32.9129 | |
| gduggal-bwafb | INDEL | * | map_l100_m1_e0 | homalt | 98.5277 | 98.2070 | 98.8506 | 84.0137 | 1205 | 22 | 1204 | 14 | 12 | 85.7143 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | homalt | 98.4879 | 98.2070 | 98.7705 | 81.8398 | 1205 | 22 | 1205 | 15 | 10 | 66.6667 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0127 | 98.2067 | 99.8321 | 79.0112 | 4162 | 76 | 4162 | 7 | 4 | 57.1429 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0810 | 98.2062 | 99.9717 | 26.1765 | 7117 | 130 | 7057 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | het | 98.7623 | 98.2061 | 99.3248 | 58.2604 | 45383 | 829 | 45014 | 306 | 59 | 19.2810 | |
| asubramanian-gatk | INDEL | I1_5 | segdup | * | 98.7667 | 98.2059 | 99.3340 | 95.0336 | 1040 | 19 | 1044 | 7 | 2 | 28.5714 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.4080 | 98.2055 | 80.3880 | 75.9570 | 3393 | 62 | 3398 | 829 | 114 | 13.7515 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | * | 98.6793 | 98.2053 | 99.1579 | 57.8639 | 4706 | 86 | 4710 | 40 | 39 | 97.5000 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e1 | homalt | 98.4736 | 98.2045 | 98.7441 | 83.1392 | 1258 | 23 | 1258 | 16 | 11 | 68.7500 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.0855 | 98.2042 | 97.9671 | 47.8546 | 3992 | 73 | 4048 | 84 | 36 | 42.8571 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | homalt | 99.0937 | 98.2036 | 100.0000 | 51.0204 | 1148 | 21 | 1104 | 0 | 0 | ||
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | homalt | 98.9350 | 98.2030 | 99.6781 | 89.3193 | 929 | 17 | 929 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6877 | 98.2028 | 99.1775 | 66.2939 | 3497 | 64 | 3497 | 29 | 23 | 79.3103 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e1 | het | 97.3145 | 98.2025 | 96.4425 | 69.0883 | 46055 | 843 | 46059 | 1699 | 659 | 38.7875 | |
| jlack-gatk | INDEL | * | map_l125_m2_e1 | * | 94.6989 | 98.2022 | 91.4369 | 90.8050 | 2185 | 40 | 2189 | 205 | 14 | 6.8293 | |
| gduggal-snapfb | INDEL | D1_5 | map_siren | homalt | 98.1197 | 98.2021 | 98.0375 | 84.5627 | 1147 | 21 | 1149 | 23 | 11 | 47.8261 | |
| cchapple-custom | SNP | tv | map_siren | homalt | 99.0870 | 98.2019 | 99.9882 | 51.4688 | 16930 | 310 | 16915 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | * | homalt | 99.0843 | 98.2012 | 99.9834 | 17.0820 | 788593 | 14445 | 788346 | 131 | 112 | 85.4962 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2028 | 98.2005 | 98.2051 | 88.8460 | 764 | 14 | 766 | 14 | 7 | 50.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.6039 | 98.1997 | 99.0115 | 87.1860 | 600 | 11 | 601 | 6 | 4 | 66.6667 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0133 | 98.1991 | 99.8412 | 55.4691 | 3817 | 70 | 3772 | 6 | 3 | 50.0000 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | homalt | 98.9183 | 98.1990 | 99.6482 | 74.5368 | 11614 | 213 | 11614 | 41 | 25 | 60.9756 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.9564 | 98.1990 | 99.7257 | 68.9479 | 2181 | 40 | 2181 | 6 | 4 | 66.6667 | |
| jpowers-varprowl | SNP | ti | map_l150_m1_e0 | homalt | 99.0024 | 98.1984 | 99.8196 | 73.5826 | 7195 | 132 | 7195 | 13 | 10 | 76.9231 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 78.5332 | 98.1982 | 65.4303 | 85.7535 | 436 | 8 | 441 | 233 | 107 | 45.9227 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0909 | 98.1982 | 100.0000 | 84.6695 | 436 | 8 | 436 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | map_l250_m1_e0 | het | 94.3723 | 98.1982 | 90.8333 | 95.7865 | 109 | 2 | 109 | 11 | 1 | 9.0909 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 82.1159 | 98.1982 | 70.5600 | 84.9325 | 436 | 8 | 441 | 184 | 107 | 58.1522 | |
| eyeh-varpipe | INDEL | D1_5 | map_l250_m1_e0 | het | 96.8418 | 98.1982 | 95.5224 | 94.5946 | 109 | 2 | 128 | 6 | 1 | 16.6667 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | het | 78.1362 | 98.1982 | 64.8810 | 95.9104 | 109 | 2 | 109 | 59 | 4 | 6.7797 | |
| jlack-gatk | INDEL | D1_5 | map_l250_m1_e0 | het | 85.1562 | 98.1982 | 75.1724 | 96.7963 | 109 | 2 | 109 | 36 | 1 | 2.7778 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.7719 | 98.1982 | 99.3523 | 82.2488 | 763 | 14 | 767 | 5 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0909 | 98.1982 | 100.0000 | 84.3053 | 436 | 8 | 436 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5182 | 98.1982 | 98.8402 | 84.7364 | 763 | 14 | 767 | 9 | 0 | 0.0000 | |