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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32151-32200 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9263 | 98.3656 | 99.4933 | 72.9052 | 30634 | 509 | 30634 | 156 | 20 | 12.8205 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | * | 97.2818 | 97.6712 | 96.8956 | 89.8498 | 7801 | 186 | 7803 | 250 | 32 | 12.8000 | |
| gduggal-snapvard | SNP | * | segdup | het | 98.1316 | 97.2975 | 98.9803 | 94.4886 | 16849 | 468 | 16695 | 172 | 22 | 12.7907 | |
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.6349 | 98.9595 | 92.5264 | 70.1656 | 27390 | 288 | 27497 | 2221 | 284 | 12.7870 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e0 | het | 91.3057 | 98.8220 | 84.8519 | 90.7276 | 755 | 9 | 745 | 133 | 17 | 12.7820 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | * | 77.0822 | 63.5950 | 97.8298 | 88.5344 | 8116 | 4646 | 8114 | 180 | 23 | 12.7778 | |
| ckim-dragen | INDEL | D1_5 | * | het | 99.5957 | 99.7625 | 99.4294 | 59.4097 | 87366 | 208 | 87308 | 501 | 64 | 12.7745 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 56.9106 | 85.3659 | 42.6829 | 94.4180 | 35 | 6 | 35 | 47 | 6 | 12.7660 | |
| hfeng-pmm2 | SNP | tv | map_l250_m1_e0 | * | 98.2628 | 98.3000 | 98.2257 | 89.1399 | 2602 | 45 | 2602 | 47 | 6 | 12.7660 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.5049 | 98.6984 | 81.8782 | 76.1990 | 1744 | 23 | 1735 | 384 | 49 | 12.7604 | |
| gduggal-snapfb | SNP | * | HG002complexvar | * | 99.1200 | 99.6105 | 98.6343 | 21.7486 | 751447 | 2938 | 752277 | 10416 | 1326 | 12.7304 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9719 | 99.1684 | 98.7761 | 70.4653 | 30884 | 259 | 31073 | 385 | 49 | 12.7273 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e0 | het | 98.0384 | 98.4395 | 97.6405 | 86.1291 | 2271 | 36 | 2276 | 55 | 7 | 12.7273 | |
| hfeng-pmm2 | INDEL | * | map_l100_m2_e1 | het | 98.0684 | 98.4635 | 97.6764 | 86.2047 | 2307 | 36 | 2312 | 55 | 7 | 12.7273 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 66.2142 | 52.8967 | 88.4937 | 95.5535 | 420 | 374 | 423 | 55 | 7 | 12.7273 | |
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | het | 98.2667 | 98.7337 | 97.8041 | 84.8097 | 2807 | 36 | 2806 | 63 | 8 | 12.6984 | |
| gduggal-snapplat | SNP | ti | segdup | * | 99.0792 | 98.8483 | 99.3111 | 92.8755 | 19312 | 225 | 19317 | 134 | 17 | 12.6866 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | * | 99.0163 | 98.9347 | 99.0981 | 88.6629 | 7801 | 84 | 7801 | 71 | 9 | 12.6761 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | * | 99.0226 | 98.9358 | 99.1095 | 88.7342 | 7902 | 85 | 7902 | 71 | 9 | 12.6761 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 53.0778 | 74.8120 | 41.1290 | 71.0280 | 199 | 67 | 204 | 292 | 37 | 12.6712 | |
| ckim-gatk | INDEL | * | map_l100_m1_e0 | * | 97.0622 | 98.4384 | 95.7240 | 88.3725 | 3530 | 56 | 3537 | 158 | 20 | 12.6582 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9865 | 98.4716 | 99.5069 | 53.0976 | 1353 | 21 | 15941 | 79 | 10 | 12.6582 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | * | 99.6458 | 99.6045 | 99.6872 | 66.3290 | 25183 | 100 | 25179 | 79 | 10 | 12.6582 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m0_e0 | * | 90.8918 | 96.5726 | 85.8423 | 90.8419 | 479 | 17 | 479 | 79 | 10 | 12.6582 | |
| ckim-dragen | SNP | * | map_l250_m2_e0 | * | 97.2970 | 97.6791 | 96.9179 | 89.7648 | 7702 | 183 | 7704 | 245 | 31 | 12.6531 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.5798 | 99.2191 | 94.0773 | 54.5022 | 18041 | 142 | 18092 | 1139 | 144 | 12.6427 | |
| ltrigg-rtg1 | SNP | * | map_siren | * | 99.4858 | 99.2395 | 99.7333 | 50.0979 | 145115 | 1112 | 145108 | 388 | 49 | 12.6289 | |
| ckim-gatk | SNP | ti | map_l100_m0_e0 | * | 83.4318 | 72.5369 | 98.1781 | 82.8871 | 15792 | 5979 | 15789 | 293 | 37 | 12.6280 | |
| gduggal-snapplat | SNP | * | * | het | 98.7739 | 98.5851 | 98.9633 | 30.9812 | 1847092 | 26509 | 1848114 | 19360 | 2442 | 12.6136 | |
| cchapple-custom | INDEL | D1_5 | map_siren | * | 97.4907 | 98.1298 | 96.8600 | 78.7253 | 3463 | 66 | 3424 | 111 | 14 | 12.6126 | |
| bgallagher-sentieon | SNP | tv | map_l125_m0_e0 | het | 98.2208 | 99.1138 | 97.3437 | 79.3814 | 4362 | 39 | 4361 | 119 | 15 | 12.6050 | |
| gduggal-bwaplat | SNP | ti | * | het | 98.9567 | 98.3966 | 99.5232 | 28.0886 | 1261337 | 20554 | 1261923 | 6046 | 762 | 12.6034 | |
| ltrigg-rtg2 | SNP | ti | segdup | * | 99.2028 | 99.6980 | 98.7126 | 86.7471 | 19478 | 59 | 19475 | 254 | 32 | 12.5984 | |
| ghariani-varprowl | SNP | * | map_siren | het | 98.3861 | 99.3911 | 97.4013 | 64.9618 | 90437 | 554 | 90440 | 2413 | 303 | 12.5570 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.3372 | 98.5927 | 92.2897 | 84.7602 | 10649 | 152 | 10677 | 892 | 112 | 12.5561 | |
| ckim-dragen | SNP | * | map_l250_m1_e0 | * | 97.2004 | 97.5768 | 96.8269 | 89.0554 | 7047 | 175 | 7049 | 231 | 29 | 12.5541 | |
| hfeng-pmm2 | SNP | * | map_l125_m0_e0 | * | 99.0092 | 99.2468 | 98.7728 | 76.6565 | 19239 | 146 | 19236 | 239 | 30 | 12.5523 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6319 | 99.3746 | 99.8906 | 32.4559 | 7309 | 46 | 7305 | 8 | 1 | 12.5000 | |
| hfeng-pmm2 | SNP | * | map_l100_m1_e0 | * | 99.5195 | 99.5580 | 99.4810 | 66.0017 | 72083 | 320 | 72072 | 376 | 47 | 12.5000 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e0 | * | 98.6338 | 98.8840 | 98.3849 | 89.8595 | 7797 | 88 | 7797 | 128 | 16 | 12.5000 | |
| hfeng-pmm2 | SNP | ti | HG002complexvar | het | 99.8373 | 99.6928 | 99.9822 | 16.6591 | 313799 | 967 | 313749 | 56 | 7 | 12.5000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | * | 99.2981 | 99.4065 | 99.1899 | 76.2408 | 19595 | 117 | 19591 | 160 | 20 | 12.5000 | |
| hfeng-pmm1 | SNP | tv | map_l150_m0_e0 | het | 98.7997 | 98.4523 | 99.1495 | 80.8249 | 2799 | 44 | 2798 | 24 | 3 | 12.5000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | het | 98.1856 | 97.6289 | 98.7487 | 88.3106 | 1894 | 46 | 1894 | 24 | 3 | 12.5000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e1 | het | 98.2088 | 97.6590 | 98.7648 | 88.3806 | 1919 | 46 | 1919 | 24 | 3 | 12.5000 | |
| hfeng-pmm2 | INDEL | * | map_l250_m1_e0 | het | 94.3590 | 96.8421 | 92.0000 | 96.2714 | 184 | 6 | 184 | 16 | 2 | 12.5000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m0_e0 | * | 98.0476 | 98.8413 | 97.2665 | 85.1010 | 853 | 10 | 854 | 24 | 3 | 12.5000 | |
| jli-custom | INDEL | * | segdup | het | 99.1785 | 98.9086 | 99.4498 | 94.3865 | 1450 | 16 | 1446 | 8 | 1 | 12.5000 | |
| jli-custom | INDEL | D1_5 | map_l125_m0_e0 | het | 97.8292 | 97.9710 | 97.6879 | 87.4501 | 338 | 7 | 338 | 8 | 1 | 12.5000 | |