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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31901-31950 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 81.4625 | 93.8889 | 71.9409 | 88.0905 | 676 | 44 | 682 | 266 | 37 | 13.9098 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e1 | * | 99.3647 | 99.6084 | 99.1222 | 68.5080 | 25184 | 99 | 25180 | 223 | 31 | 13.9013 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | het | 98.4386 | 98.9798 | 97.9033 | 83.1082 | 5045 | 52 | 5043 | 108 | 15 | 13.8889 | |
| astatham-gatk | INDEL | * | map_l125_m1_e0 | het | 95.1476 | 93.1835 | 97.1963 | 89.1710 | 1244 | 91 | 1248 | 36 | 5 | 13.8889 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | * | 80.3694 | 72.9367 | 89.4891 | 92.8627 | 1140 | 423 | 1226 | 144 | 20 | 13.8889 | |
| gduggal-snapplat | INDEL | * | map_l250_m2_e0 | * | 76.4380 | 68.2779 | 86.8132 | 98.1240 | 226 | 105 | 237 | 36 | 5 | 13.8889 | |
| gduggal-snapplat | INDEL | * | map_l250_m2_e1 | * | 76.5945 | 68.4685 | 86.9091 | 98.1619 | 228 | 105 | 239 | 36 | 5 | 13.8889 | |
| ghariani-varprowl | SNP | ti | map_l250_m0_e0 | het | 93.0734 | 97.1092 | 89.3596 | 95.1651 | 907 | 27 | 907 | 108 | 15 | 13.8889 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m1_e0 | * | 97.0194 | 97.3346 | 96.7063 | 87.6399 | 1059 | 29 | 1057 | 36 | 5 | 13.8889 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.0137 | 98.0306 | 96.0177 | 76.2105 | 896 | 18 | 868 | 36 | 5 | 13.8889 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | * | 98.9559 | 98.1449 | 99.7803 | 61.1285 | 16348 | 309 | 16353 | 36 | 5 | 13.8889 | |
| hfeng-pmm3 | SNP | tv | map_l125_m1_e0 | * | 99.5034 | 99.4568 | 99.5500 | 69.7161 | 15929 | 87 | 15927 | 72 | 10 | 13.8889 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e0 | * | 99.5176 | 99.4724 | 99.5629 | 71.4177 | 16402 | 87 | 16400 | 72 | 10 | 13.8889 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | * | 99.5225 | 99.4777 | 99.5673 | 71.4702 | 16570 | 87 | 16568 | 72 | 10 | 13.8889 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9022 | 99.1118 | 98.6934 | 54.7879 | 28009 | 251 | 51137 | 677 | 94 | 13.8848 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 76.2728 | 88.8112 | 66.8367 | 94.9485 | 127 | 16 | 131 | 65 | 9 | 13.8462 | |
| jpowers-varprowl | SNP | ti | func_cds | * | 99.5285 | 99.5285 | 99.5285 | 26.5751 | 13722 | 65 | 13722 | 65 | 9 | 13.8462 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m2_e0 | * | 99.2918 | 98.8495 | 99.7380 | 59.7315 | 24745 | 288 | 24740 | 65 | 9 | 13.8462 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e0 | het | 93.1051 | 98.1443 | 88.5581 | 92.2231 | 1904 | 36 | 1904 | 246 | 34 | 13.8211 | |
| bgallagher-sentieon | SNP | ti | map_l100_m1_e0 | het | 99.2799 | 99.4757 | 99.0849 | 68.0556 | 29785 | 157 | 29778 | 275 | 38 | 13.8182 | |
| qzeng-custom | INDEL | D16_PLUS | * | het | 80.5778 | 97.4992 | 68.6613 | 61.3602 | 3080 | 79 | 4888 | 2231 | 308 | 13.8055 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m1_e0 | het | 98.5415 | 97.2791 | 99.8371 | 55.5647 | 17769 | 497 | 17770 | 29 | 4 | 13.7931 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | het | 97.5150 | 98.3626 | 96.6819 | 90.6743 | 841 | 14 | 845 | 29 | 4 | 13.7931 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9242 | 94.4785 | 91.4201 | 83.9430 | 308 | 18 | 309 | 29 | 4 | 13.7931 | |
| ltrigg-rtg1 | SNP | * | map_l125_m2_e1 | het | 98.7345 | 97.7868 | 99.7007 | 62.3395 | 28984 | 656 | 28985 | 87 | 12 | 13.7931 | |
| hfeng-pmm3 | SNP | tv | map_l100_m0_e0 | * | 99.4268 | 99.3775 | 99.4762 | 69.0933 | 11015 | 69 | 11014 | 58 | 8 | 13.7931 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | het | 98.4241 | 97.9397 | 98.9135 | 73.5192 | 2662 | 56 | 2640 | 29 | 4 | 13.7931 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m2_e1 | * | 96.8643 | 97.4293 | 96.3057 | 90.2509 | 758 | 20 | 756 | 29 | 4 | 13.7931 | |
| gduggal-snapplat | SNP | * | * | * | 99.0030 | 98.6815 | 99.3266 | 26.8746 | 3014360 | 40274 | 3015151 | 20442 | 2819 | 13.7902 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | * | 94.5092 | 97.3937 | 91.7906 | 91.6664 | 2840 | 76 | 2840 | 254 | 35 | 13.7795 | |
| gduggal-bwaplat | SNP | * | HG002complexvar | * | 97.7797 | 96.6309 | 98.9561 | 21.4247 | 728965 | 25416 | 729516 | 7696 | 1060 | 13.7734 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4715 | 99.6836 | 99.2603 | 56.9862 | 55455 | 176 | 55556 | 414 | 57 | 13.7681 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.4080 | 98.2055 | 80.3880 | 75.9570 | 3393 | 62 | 3398 | 829 | 114 | 13.7515 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 68.4640 | 56.8794 | 85.9743 | 82.6329 | 802 | 608 | 803 | 131 | 18 | 13.7405 | |
| gduggal-snapplat | INDEL | * | map_l125_m1_e0 | * | 81.4439 | 74.1813 | 90.2830 | 92.9787 | 1563 | 544 | 1691 | 182 | 25 | 13.7363 | |
| hfeng-pmm3 | SNP | tv | map_l125_m0_e0 | * | 99.1700 | 99.1102 | 99.2298 | 75.2152 | 6572 | 59 | 6571 | 51 | 7 | 13.7255 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4567 | 99.7995 | 97.1496 | 66.8736 | 2489 | 5 | 2488 | 73 | 10 | 13.6986 | |
| raldana-dualsentieon | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3348 | 99.0173 | 99.6544 | 63.3928 | 27406 | 272 | 27397 | 95 | 13 | 13.6842 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| cchapple-custom | SNP | * | segdup | * | 99.5856 | 99.8219 | 99.3504 | 91.8828 | 28017 | 50 | 27988 | 183 | 25 | 13.6612 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | het | 93.1209 | 98.1679 | 88.5675 | 92.2930 | 1929 | 36 | 1929 | 249 | 34 | 13.6546 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | het | 99.0076 | 99.3826 | 98.6355 | 75.8378 | 29137 | 181 | 29131 | 403 | 55 | 13.6476 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.9362 | 87.5375 | 65.5063 | 57.1453 | 1166 | 166 | 1656 | 872 | 119 | 13.6468 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 23.2024 | 14.2344 | 62.7119 | 73.6999 | 119 | 717 | 111 | 66 | 9 | 13.6364 | |
| bgallagher-sentieon | SNP | tv | map_l100_m0_e0 | het | 98.6394 | 99.3908 | 97.8993 | 74.3366 | 7178 | 44 | 7177 | 154 | 21 | 13.6364 | |
| astatham-gatk | SNP | tv | map_l150_m0_e0 | het | 91.2506 | 84.5586 | 99.0928 | 85.6322 | 2404 | 439 | 2403 | 22 | 3 | 13.6364 | |
| hfeng-pmm3 | SNP | ti | map_l250_m0_e0 | * | 98.5053 | 98.6131 | 98.3977 | 92.9205 | 1351 | 19 | 1351 | 22 | 3 | 13.6364 | |
| dgrover-gatk | SNP | tv | segdup | * | 99.6606 | 99.8359 | 99.4859 | 91.6354 | 8518 | 14 | 8514 | 44 | 6 | 13.6364 | |
| dgrover-gatk | INDEL | * | map_l150_m1_e0 | het | 97.6722 | 97.8947 | 97.4508 | 91.3510 | 837 | 18 | 841 | 22 | 3 | 13.6364 | |