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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4151-4200 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5802 | 99.1091 | 98.0569 | 48.2748 | 18021 | 162 | 18066 | 358 | 80 | 22.3464 | |
| gduggal-bwaplat | INDEL | * | * | hetalt | 82.4487 | 71.6091 | 97.1551 | 71.6669 | 18072 | 7165 | 18066 | 529 | 513 | 96.9754 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | het | 99.3340 | 99.1643 | 99.5043 | 57.7801 | 18037 | 152 | 18065 | 90 | 80 | 88.8889 | |
| ckim-vqsr | INDEL | I1_5 | HG002complexvar | het | 99.6583 | 99.4392 | 99.8784 | 58.1585 | 18087 | 102 | 18064 | 22 | 13 | 59.0909 | |
| raldana-dualsentieon | SNP | ti | map_l125_m1_e0 | het | 98.7264 | 98.8941 | 98.5593 | 72.2989 | 18064 | 202 | 18060 | 264 | 3 | 1.1364 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0811 | 99.3345 | 98.8289 | 41.8039 | 18062 | 121 | 18059 | 214 | 2 | 0.9346 | |
| jpowers-varprowl | SNP | * | func_cds | * | 99.3809 | 99.4931 | 99.2689 | 29.1793 | 18058 | 92 | 18058 | 133 | 14 | 10.5263 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.8832 | 99.4000 | 96.4120 | 64.9755 | 18057 | 109 | 18057 | 672 | 654 | 97.3214 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2278 | 99.3890 | 99.0672 | 63.8278 | 18055 | 111 | 18055 | 170 | 157 | 92.3529 | |
| hfeng-pmm1 | SNP | ti | map_l125_m1_e0 | het | 99.2306 | 98.8613 | 99.6028 | 70.2477 | 18058 | 208 | 18054 | 72 | 18 | 25.0000 | |
| jli-custom | INDEL | I1_5 | HG002complexvar | het | 99.6665 | 99.4282 | 99.9059 | 56.5291 | 18085 | 104 | 18053 | 17 | 9 | 52.9412 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| ghariani-varprowl | SNP | ti | map_l125_m1_e0 | het | 97.6469 | 98.8229 | 96.4984 | 77.7923 | 18051 | 215 | 18051 | 655 | 143 | 21.8321 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | het | 99.6251 | 99.3568 | 99.8949 | 58.0548 | 18072 | 117 | 18051 | 19 | 9 | 47.3684 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0722 | 99.3449 | 98.8011 | 64.3152 | 18047 | 119 | 18047 | 219 | 203 | 92.6941 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0722 | 99.3449 | 98.8011 | 64.3152 | 18047 | 119 | 18047 | 219 | 203 | 92.6941 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6906 | 99.4825 | 97.9112 | 60.8903 | 18072 | 94 | 18047 | 385 | 366 | 95.0649 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6906 | 99.4825 | 97.9112 | 60.8903 | 18072 | 94 | 18047 | 385 | 366 | 95.0649 | |
| jli-custom | SNP | ti | map_l125_m1_e0 | het | 99.1158 | 98.8065 | 99.4270 | 68.8246 | 18048 | 218 | 18046 | 104 | 33 | 31.7308 | |
| ndellapenna-hhga | INDEL | * | * | hetalt | 84.9841 | 74.5730 | 98.7738 | 62.9843 | 18820 | 6417 | 18044 | 224 | 192 | 85.7143 | |
| qzeng-custom | SNP | * | func_cds | * | 99.7598 | 99.8182 | 99.7016 | 28.7413 | 18117 | 33 | 18040 | 54 | 4 | 7.4074 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5585 | 99.2191 | 99.9003 | 37.7315 | 18041 | 142 | 18038 | 18 | 6 | 33.3333 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3283 | 99.2191 | 99.4377 | 37.1644 | 18041 | 142 | 18038 | 102 | 2 | 1.9608 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5502 | 99.2026 | 99.9003 | 37.1632 | 18038 | 145 | 18035 | 18 | 3 | 16.6667 | |
| egarrison-hhga | SNP | ti | map_l125_m1_e0 | het | 99.2515 | 98.7299 | 99.7787 | 70.5410 | 18034 | 232 | 18034 | 40 | 16 | 40.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4319 | 99.1366 | 99.7290 | 37.0539 | 18026 | 157 | 18031 | 49 | 28 | 57.1429 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | hetalt | 83.3202 | 71.6362 | 99.5583 | 64.0234 | 18038 | 7142 | 18031 | 80 | 66 | 82.5000 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | het | 99.6858 | 99.5712 | 99.8007 | 57.6433 | 18111 | 78 | 18030 | 36 | 22 | 61.1111 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5556 | 99.1696 | 99.9446 | 40.0259 | 18032 | 151 | 18029 | 10 | 2 | 20.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9586 | 98.9331 | 97.0031 | 50.6413 | 17989 | 194 | 18029 | 557 | 149 | 26.7504 | |
| gduggal-snapplat | SNP | * | func_cds | * | 99.4703 | 99.3223 | 99.6187 | 31.7106 | 18027 | 123 | 18027 | 69 | 5 | 7.2464 | |
| gduggal-bwafb | SNP | ti | map_l125_m1_e0 | het | 98.5889 | 98.6861 | 98.4920 | 74.2606 | 18026 | 240 | 18026 | 276 | 77 | 27.8986 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4758 | 99.1531 | 99.8007 | 37.5709 | 18029 | 154 | 18026 | 36 | 2 | 5.5556 | |
| cchapple-custom | SNP | ti | map_l100_m2_e1 | homalt | 98.7103 | 97.4640 | 99.9889 | 57.8502 | 18025 | 469 | 18020 | 2 | 2 | 100.0000 | |
| mlin-fermikit | SNP | * | func_cds | * | 99.4453 | 99.2617 | 99.6295 | 19.0809 | 18016 | 134 | 18016 | 67 | 48 | 71.6418 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | het | 99.5309 | 99.1588 | 99.9057 | 57.5378 | 18036 | 153 | 18015 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002complexvar | het | 99.4978 | 99.1313 | 99.8669 | 57.6162 | 18031 | 158 | 18012 | 24 | 10 | 41.6667 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6752 | 99.5050 | 97.8590 | 48.2393 | 18093 | 90 | 18009 | 394 | 21 | 5.3300 | |
| gduggal-bwaplat | SNP | * | func_cds | * | 99.4779 | 99.2121 | 99.7452 | 34.2475 | 18007 | 143 | 18007 | 46 | 4 | 8.6957 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2994 | 98.9826 | 99.6182 | 37.5156 | 17998 | 185 | 18004 | 69 | 46 | 66.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | het | 99.4756 | 99.0819 | 99.8724 | 57.6818 | 18022 | 167 | 18002 | 23 | 11 | 47.8261 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.8405 | 91.9659 | 97.9006 | 68.3752 | 18006 | 1573 | 18000 | 386 | 15 | 3.8860 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.8405 | 91.9659 | 97.9006 | 68.3752 | 18006 | 1573 | 18000 | 386 | 15 | 3.8860 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | hetalt | 85.1313 | 74.5631 | 99.1899 | 56.3007 | 18775 | 6405 | 18000 | 147 | 122 | 82.9932 | |
| ciseli-custom | SNP | * | func_cds | * | 97.9137 | 99.4601 | 96.4146 | 25.6110 | 18052 | 98 | 17990 | 669 | 42 | 6.2780 | |