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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28401-28450 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I6_15 | map_l100_m0_e0 | homalt | 37.5000 | 25.0000 | 75.0000 | 89.7436 | 3 | 9 | 3 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | het | 83.5804 | 79.9740 | 87.5274 | 89.7430 | 1845 | 462 | 2400 | 342 | 54 | 15.7895 | |
| ciseli-custom | INDEL | * | map_l100_m0_e0 | * | 68.0279 | 62.5720 | 74.5262 | 89.7426 | 978 | 585 | 983 | 336 | 210 | 62.5000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | segdup | * | 95.5556 | 91.4894 | 100.0000 | 89.7375 | 43 | 4 | 43 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 97.7273 | 95.5556 | 100.0000 | 89.7375 | 43 | 2 | 43 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 98.8506 | 97.7273 | 100.0000 | 89.7375 | 43 | 1 | 43 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l125_m1_e0 | * | 91.7244 | 88.6029 | 95.0739 | 89.7371 | 964 | 124 | 965 | 50 | 5 | 10.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m2_e1 | het | 95.3061 | 92.7445 | 98.0132 | 89.7349 | 294 | 23 | 296 | 6 | 1 | 16.6667 | |
| gduggal-snapvard | INDEL | I1_5 | segdup | homalt | 93.4028 | 88.3721 | 99.0408 | 89.7341 | 418 | 55 | 413 | 4 | 4 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l250_m2_e1 | homalt | 76.2953 | 62.2622 | 98.4950 | 89.7339 | 589 | 357 | 589 | 9 | 9 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 95.3690 | 95.3623 | 95.3757 | 89.7329 | 329 | 16 | 330 | 16 | 1 | 6.2500 | |
| qzeng-custom | INDEL | D6_15 | map_l150_m1_e0 | homalt | 87.8327 | 84.6154 | 91.3043 | 89.7321 | 22 | 4 | 21 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | segdup | * | 94.3820 | 89.3617 | 100.0000 | 89.7311 | 42 | 5 | 42 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | het | 97.4639 | 97.3510 | 97.5771 | 89.7297 | 882 | 24 | 886 | 22 | 6 | 27.2727 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | homalt | 99.1945 | 98.8532 | 99.5381 | 89.7296 | 431 | 5 | 431 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | SNP | ti | segdup | homalt | 99.6936 | 99.7335 | 99.6538 | 89.7294 | 7485 | 20 | 7484 | 26 | 9 | 34.6154 | |
| jpowers-varprowl | INDEL | I6_15 | segdup | homalt | 84.2758 | 74.4681 | 97.0588 | 89.7281 | 35 | 12 | 33 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9908 | 72.0050 | 92.5390 | 89.7242 | 571 | 222 | 831 | 67 | 13 | 19.4030 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l125_m2_e1 | het | 97.1014 | 94.3662 | 100.0000 | 89.7239 | 67 | 4 | 67 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l150_m1_e0 | het | 84.3543 | 74.8499 | 96.6237 | 89.7210 | 14458 | 4858 | 14452 | 505 | 40 | 7.9208 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m1_e0 | * | 53.8462 | 46.6667 | 63.6364 | 89.7196 | 7 | 8 | 7 | 4 | 3 | 75.0000 | |
| gduggal-snapplat | SNP | tv | map_l250_m1_e0 | homalt | 86.4721 | 76.1682 | 100.0000 | 89.7193 | 652 | 204 | 652 | 0 | 0 | ||
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7046 | 97.0188 | 92.4983 | 89.7173 | 2636 | 81 | 2762 | 224 | 60 | 26.7857 | |
| cchapple-custom | INDEL | * | map_l125_m0_e0 | het | 93.7970 | 95.7411 | 91.9304 | 89.7169 | 562 | 25 | 581 | 51 | 8 | 15.6863 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e1 | het | 94.4634 | 97.9012 | 91.2587 | 89.7122 | 793 | 17 | 783 | 75 | 36 | 48.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l125_m2_e1 | homalt | 80.6452 | 67.5676 | 100.0000 | 89.7119 | 25 | 12 | 25 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | map_l150_m1_e0 | homalt | 98.0392 | 96.1538 | 100.0000 | 89.7119 | 25 | 1 | 25 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | map_l125_m1_e0 | het | 90.9091 | 83.3333 | 100.0000 | 89.7119 | 25 | 5 | 25 | 0 | 0 | ||
| astatham-gatk | INDEL | I6_15 | map_l100_m2_e0 | homalt | 98.4615 | 96.9697 | 100.0000 | 89.7106 | 32 | 1 | 32 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 94.6463 | 91.6667 | 97.8261 | 89.7092 | 44 | 4 | 45 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | * | 97.9254 | 98.5800 | 97.2794 | 89.7079 | 1319 | 19 | 1323 | 37 | 6 | 16.2162 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.8974 | 99.0244 | 94.8598 | 89.7066 | 203 | 2 | 203 | 11 | 9 | 81.8182 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8974 | 99.0244 | 94.8598 | 89.7066 | 203 | 2 | 203 | 11 | 9 | 81.8182 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m2_e0 | het | 62.5000 | 55.5556 | 71.4286 | 89.7059 | 5 | 4 | 5 | 2 | 2 | 100.0000 | |
| ciseli-custom | INDEL | C16_PLUS | HG002compoundhet | homalt | 0.0000 | 0.0000 | 89.7059 | 0 | 0 | 0 | 21 | 12 | 57.1429 | ||
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 40.0000 | 66.6667 | 28.5714 | 89.7059 | 2 | 1 | 2 | 5 | 0 | 0.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 40.0000 | 66.6667 | 28.5714 | 89.7059 | 2 | 1 | 2 | 5 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m0_e0 | het | 97.3057 | 98.0198 | 96.6019 | 89.7051 | 198 | 4 | 199 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 93.2365 | 88.7931 | 98.1481 | 89.7045 | 103 | 13 | 106 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e0 | * | 98.3016 | 98.4039 | 98.1994 | 89.7037 | 2836 | 46 | 2836 | 52 | 7 | 13.4615 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 85.8875 | 93.5591 | 79.3786 | 89.7033 | 2542 | 175 | 2606 | 677 | 208 | 30.7238 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m2_e0 | het | 95.1813 | 92.5566 | 97.9592 | 89.7023 | 286 | 23 | 288 | 6 | 1 | 16.6667 | |
| raldana-dualsentieon | INDEL | I6_15 | map_l125_m2_e0 | het | 88.8889 | 80.0000 | 100.0000 | 89.6996 | 24 | 6 | 24 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.7807 | 89.4737 | 96.3415 | 89.6985 | 85 | 10 | 79 | 3 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 96.4706 | 93.1818 | 100.0000 | 89.6985 | 41 | 3 | 41 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | map_l100_m2_e1 | * | 95.9559 | 94.9091 | 97.0260 | 89.6974 | 261 | 14 | 261 | 8 | 3 | 37.5000 | |
| dgrover-gatk | INDEL | D6_15 | map_l125_m2_e0 | homalt | 97.1429 | 94.4444 | 100.0000 | 89.6970 | 34 | 2 | 34 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.5376 | 95.9677 | 99.1597 | 89.6970 | 119 | 5 | 118 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e0 | * | 94.5805 | 94.0895 | 95.0767 | 89.6969 | 4712 | 296 | 4712 | 244 | 127 | 52.0492 | |
| gduggal-bwaplat | INDEL | * | map_siren | * | 85.3786 | 75.0202 | 99.0556 | 89.6958 | 5559 | 1851 | 5559 | 53 | 26 | 49.0566 | |