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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20451-20500 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3108 | 98.0414 | 98.5817 | 67.0115 | 17470 | 349 | 17099 | 246 | 203 | 82.5203 | |
| anovak-vg | SNP | ti | * | het | 98.0963 | 98.0413 | 98.1515 | 22.3908 | 1256788 | 25109 | 1253632 | 23610 | 9204 | 38.9835 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e0 | het | 98.4472 | 98.0412 | 98.8565 | 88.5422 | 1902 | 38 | 1902 | 22 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m0_e0 | het | 97.5662 | 98.0411 | 97.0958 | 88.5957 | 1001 | 20 | 1003 | 30 | 4 | 13.3333 | |
| jmaeng-gatk | INDEL | * | map_l100_m0_e0 | het | 94.7997 | 98.0411 | 91.7658 | 91.6857 | 1001 | 20 | 1003 | 90 | 4 | 4.4444 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e1 | * | 98.5749 | 98.0402 | 99.1155 | 82.3896 | 1901 | 38 | 1905 | 17 | 5 | 29.4118 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e1 | * | 97.6611 | 98.0402 | 97.2848 | 85.9143 | 1901 | 38 | 1899 | 53 | 6 | 11.3208 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2824 | 98.0398 | 98.5261 | 67.2886 | 64070 | 1281 | 63840 | 955 | 849 | 88.9005 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2824 | 98.0398 | 98.5261 | 67.2886 | 64070 | 1281 | 63840 | 955 | 849 | 88.9005 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m1_e0 | het | 98.9017 | 98.0395 | 99.7791 | 50.4672 | 29355 | 587 | 29358 | 65 | 6 | 9.2308 | |
| dgrover-gatk | INDEL | D16_PLUS | * | * | 97.8781 | 98.0395 | 97.7172 | 70.6733 | 6651 | 133 | 6635 | 155 | 103 | 66.4516 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.0099 | 98.0392 | 100.0000 | 24.2857 | 50 | 1 | 53 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | map_l250_m0_e0 | * | 97.0246 | 98.0392 | 96.0307 | 93.0983 | 750 | 15 | 750 | 31 | 5 | 16.1290 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.3396 | 98.0392 | 90.9091 | 62.3288 | 100 | 2 | 100 | 10 | 10 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1538 | 98.0392 | 94.3396 | 51.5982 | 100 | 2 | 100 | 6 | 5 | 83.3333 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5173 | 98.0392 | 99.0000 | 87.3658 | 200 | 4 | 198 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m0_e0 | * | 97.4026 | 98.0392 | 96.7742 | 93.4737 | 750 | 15 | 750 | 25 | 4 | 16.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.9695 | 98.0392 | 99.9176 | 57.2234 | 1200 | 24 | 1213 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.0099 | 98.0392 | 100.0000 | 32.8947 | 50 | 1 | 51 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.0099 | 98.0392 | 100.0000 | 32.0000 | 50 | 1 | 51 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5222 | 98.0392 | 99.0099 | 87.7204 | 200 | 4 | 200 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5076 | 98.0387 | 98.9810 | 60.6867 | 30792 | 616 | 30792 | 317 | 296 | 93.3754 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5076 | 98.0387 | 98.9810 | 60.6867 | 30792 | 616 | 30792 | 317 | 296 | 93.3754 | |
| astatham-gatk | INDEL | D6_15 | HG002complexvar | * | 98.3071 | 98.0385 | 98.5771 | 58.5385 | 5198 | 104 | 5196 | 75 | 68 | 90.6667 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | * | 98.2978 | 98.0385 | 98.5584 | 58.5437 | 5198 | 104 | 5196 | 76 | 69 | 90.7895 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.3816 | 98.0381 | 96.7339 | 73.7893 | 29882 | 598 | 29440 | 994 | 753 | 75.7545 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.3816 | 98.0381 | 96.7339 | 73.7893 | 29882 | 598 | 29440 | 994 | 753 | 75.7545 | |
| hfeng-pmm1 | INDEL | I1_5 | map_siren | het | 98.8017 | 98.0369 | 99.5786 | 80.1885 | 1648 | 33 | 1654 | 7 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_siren | het | 98.5075 | 98.0369 | 98.9826 | 78.7269 | 1648 | 33 | 1654 | 17 | 1 | 5.8824 | |
| ndellapenna-hhga | SNP | tv | map_l125_m2_e0 | het | 98.8271 | 98.0368 | 99.6302 | 69.6751 | 10237 | 205 | 10237 | 38 | 16 | 42.1053 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | het | 98.3311 | 98.0367 | 98.6272 | 84.1536 | 2297 | 46 | 2299 | 32 | 9 | 28.1250 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m2_e0 | het | 98.1032 | 98.0366 | 98.1699 | 85.9427 | 749 | 15 | 751 | 14 | 3 | 21.4286 | |
| ckim-dragen | INDEL | * | map_l100_m0_e0 | homalt | 97.6490 | 98.0354 | 97.2656 | 84.3281 | 499 | 10 | 498 | 14 | 6 | 42.8571 | |
| cchapple-custom | SNP | tv | map_l100_m1_e0 | het | 96.2530 | 98.0346 | 94.5349 | 73.9009 | 15114 | 303 | 15153 | 876 | 133 | 15.1826 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1103 | 98.0341 | 98.1865 | 65.1058 | 1895 | 38 | 1895 | 35 | 35 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0984 | 98.0341 | 98.1627 | 88.9051 | 748 | 15 | 748 | 14 | 4 | 28.5714 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m2_e0 | * | 97.8351 | 98.0341 | 97.6369 | 88.8302 | 748 | 15 | 909 | 22 | 12 | 54.5455 | |
| raldana-dualsentieon | SNP | * | map_l250_m1_e0 | * | 98.0609 | 98.0338 | 98.0881 | 87.5648 | 7080 | 142 | 7080 | 138 | 6 | 4.3478 | |
| anovak-vg | SNP | * | func_cds | * | 98.5581 | 98.0331 | 99.0887 | 29.8522 | 17793 | 357 | 17724 | 163 | 111 | 68.0982 | |
| gduggal-snapplat | SNP | tv | segdup | het | 98.3319 | 98.0329 | 98.6327 | 95.7233 | 5183 | 104 | 5194 | 72 | 6 | 8.3333 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7043 | 98.0318 | 99.3860 | 61.8783 | 1295 | 26 | 1295 | 8 | 6 | 75.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | het | 98.2280 | 98.0315 | 98.4252 | 88.1750 | 498 | 10 | 500 | 8 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m2_e1 | het | 98.5163 | 98.0315 | 99.0060 | 87.2108 | 498 | 10 | 498 | 5 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0971 | 98.0315 | 98.1627 | 67.6020 | 747 | 15 | 748 | 14 | 7 | 50.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 98.4213 | 98.0315 | 98.8142 | 89.0239 | 498 | 10 | 500 | 6 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 94.5144 | 98.0315 | 91.2409 | 91.8416 | 498 | 10 | 500 | 48 | 3 | 6.2500 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 96.5214 | 98.0315 | 95.0570 | 92.5273 | 498 | 10 | 500 | 26 | 1 | 3.8462 | |
| cchapple-custom | INDEL | D1_5 | map_siren | homalt | 98.7468 | 98.0308 | 99.4732 | 77.4812 | 1145 | 23 | 1133 | 6 | 4 | 66.6667 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7842 | 98.0306 | 99.5494 | 36.1496 | 2240 | 45 | 2430 | 11 | 6 | 54.5455 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0055 | 98.0306 | 100.0000 | 65.5504 | 896 | 18 | 895 | 0 | 0 | ||