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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46401-46450 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2468 | 97.8723 | 98.6242 | 69.6350 | 1334 | 29 | 1362 | 19 | 4 | 21.0526 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | homalt | 99.1107 | 98.5566 | 99.6710 | 69.6349 | 16661 | 244 | 16661 | 55 | 40 | 72.7273 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 68.1120 | 71.9512 | 64.6617 | 69.6347 | 118 | 46 | 86 | 47 | 43 | 91.4894 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | hetalt | 97.6373 | 95.5968 | 99.7669 | 69.6337 | 1650 | 76 | 1712 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.1346 | 97.5265 | 92.8571 | 69.6281 | 276 | 7 | 273 | 21 | 21 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8001 | 97.9911 | 97.6098 | 69.6269 | 1756 | 36 | 1756 | 43 | 31 | 72.0930 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5970 | 99.0328 | 96.2023 | 69.6244 | 4403 | 43 | 4357 | 172 | 164 | 95.3488 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 56.0346 | 92.0301 | 40.2800 | 69.6241 | 1224 | 106 | 1237 | 1834 | 1809 | 98.6369 | |
| raldana-dualsentieon | SNP | tv | map_l100_m2_e0 | het | 99.1552 | 99.3345 | 98.9766 | 69.6214 | 15672 | 105 | 15668 | 162 | 1 | 0.6173 | |
| gduggal-snapvard | SNP | * | map_siren | het | 95.1967 | 96.5469 | 93.8838 | 69.6200 | 87849 | 3142 | 86743 | 5651 | 524 | 9.2727 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 79.2304 | 81.6976 | 76.9079 | 69.6191 | 25131 | 5630 | 27693 | 8315 | 7083 | 85.1834 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | het | 99.2124 | 98.9106 | 99.5159 | 69.6159 | 20974 | 231 | 20970 | 102 | 27 | 26.4706 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | * | 97.7110 | 97.8206 | 97.6017 | 69.6113 | 72352 | 1612 | 72358 | 1778 | 689 | 38.7514 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6237 | 97.0597 | 98.1943 | 69.6107 | 3433 | 104 | 3426 | 63 | 42 | 66.6667 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6651 | 96.3610 | 96.9712 | 69.6092 | 3919 | 148 | 3906 | 122 | 111 | 90.9836 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7179 | 98.0892 | 99.3548 | 69.6078 | 154 | 3 | 154 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | hetalt | 81.6709 | 72.4696 | 93.5484 | 69.6078 | 179 | 68 | 29 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 77.1166 | 84.3061 | 71.0570 | 69.6058 | 1300 | 242 | 2131 | 868 | 620 | 71.4286 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.3183 | 97.0313 | 86.2405 | 69.6055 | 3530 | 108 | 3535 | 564 | 553 | 98.0496 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.8975 | 95.7372 | 96.0584 | 69.6019 | 4649 | 207 | 4606 | 189 | 80 | 42.3280 | |
| ndellapenna-hhga | SNP | ti | map_l125_m2_e0 | * | 99.2019 | 98.5888 | 99.8226 | 69.6014 | 29831 | 427 | 29831 | 53 | 27 | 50.9434 | |
| ckim-dragen | INDEL | D16_PLUS | HG002complexvar | het | 98.4311 | 98.3740 | 98.4884 | 69.6006 | 1089 | 18 | 847 | 13 | 2 | 15.3846 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 41.7658 | 28.7500 | 76.3158 | 69.6000 | 46 | 114 | 58 | 18 | 18 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.2973 | 100.0000 | 94.7368 | 69.6000 | 36 | 0 | 36 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.5476 | 92.4127 | 98.9026 | 69.5997 | 609 | 50 | 721 | 8 | 8 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.5476 | 92.4127 | 98.9026 | 69.5997 | 609 | 50 | 721 | 8 | 8 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1719 | 98.7467 | 99.6008 | 69.5995 | 1497 | 19 | 1497 | 6 | 2 | 33.3333 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | het | 43.5638 | 28.0338 | 97.6716 | 69.5976 | 797 | 2046 | 797 | 19 | 0 | 0.0000 | |
| anovak-vg | SNP | ti | map_l125_m0_e0 | homalt | 86.0648 | 75.9296 | 99.3223 | 69.5933 | 3410 | 1081 | 3371 | 23 | 21 | 91.3043 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.0018 | 97.1731 | 96.8310 | 69.5931 | 275 | 8 | 275 | 9 | 9 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 60.1129 | 67.5926 | 54.1237 | 69.5925 | 73 | 35 | 105 | 89 | 26 | 29.2135 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.9134 | 99.8615 | 99.9653 | 69.5900 | 11536 | 16 | 11536 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.9134 | 99.8615 | 99.9653 | 69.5900 | 11536 | 16 | 11536 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.4793 | 99.5219 | 97.4583 | 69.5878 | 17484 | 84 | 17523 | 457 | 79 | 17.2867 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.7552 | 96.6102 | 94.9153 | 69.5876 | 57 | 2 | 56 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.4566 | 84.8624 | 99.1620 | 69.5837 | 370 | 66 | 355 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 39.6215 | 29.5446 | 60.1302 | 69.5829 | 1570 | 3744 | 1570 | 1041 | 1015 | 97.5024 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5298 | 99.0776 | 99.9861 | 69.5819 | 21697 | 202 | 21585 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.7591 | 92.2386 | 99.5591 | 69.5815 | 1129 | 95 | 1129 | 5 | 5 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6437 | 99.1903 | 96.1445 | 69.5777 | 4410 | 36 | 4364 | 175 | 167 | 95.4286 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6451 | 97.4107 | 97.8807 | 69.5745 | 5944 | 158 | 34593 | 749 | 587 | 78.3712 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9092 | 98.7644 | 97.0687 | 69.5742 | 27336 | 342 | 27419 | 828 | 294 | 35.5072 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.8228 | 92.2830 | 89.4081 | 69.5735 | 287 | 24 | 287 | 34 | 29 | 85.2941 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.1373 | 99.3577 | 98.9179 | 69.5704 | 2011 | 13 | 2011 | 22 | 5 | 22.7273 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.3524 | 95.1444 | 95.5614 | 69.5669 | 725 | 37 | 732 | 34 | 14 | 41.1765 | |
| ghariani-varprowl | SNP | tv | HG002compoundhet | het | 78.1241 | 90.1776 | 68.9129 | 69.5656 | 4214 | 459 | 4336 | 1956 | 10 | 0.5112 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 73.6842 | 58.3333 | 100.0000 | 69.5652 | 7 | 5 | 7 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 75.6757 | 60.8696 | 100.0000 | 69.5652 | 28 | 18 | 28 | 0 | 0 | ||