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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3401-3450 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8197 | 99.8356 | 99.8037 | 72.1124 | 21863 | 36 | 21863 | 43 | 42 | 97.6744 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8037 | 99.8082 | 99.7991 | 72.6490 | 21857 | 42 | 21857 | 44 | 44 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.8254 | 69.6160 | 96.3373 | 74.6865 | 21865 | 9543 | 21857 | 831 | 448 | 53.9110 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3951 | 99.8402 | 98.9540 | 76.8921 | 21864 | 35 | 21853 | 231 | 230 | 99.5671 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7580 | 99.7808 | 99.7353 | 72.9432 | 21851 | 48 | 21851 | 58 | 58 | 100.0000 | |
| anovak-vg | SNP | tv | map_l100_m1_e0 | * | 83.4211 | 89.3066 | 78.2634 | 70.1430 | 21881 | 2620 | 21848 | 6068 | 1313 | 21.6381 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4891 | 99.5708 | 99.4077 | 75.9619 | 21805 | 94 | 21817 | 130 | 120 | 92.3077 | |
| ckim-gatk | SNP | ti | map_l125_m1_e0 | * | 84.6397 | 74.3855 | 98.1731 | 83.5274 | 21821 | 7514 | 21817 | 406 | 44 | 10.8374 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | * | 84.6118 | 74.3855 | 98.0980 | 83.7120 | 21821 | 7514 | 21817 | 423 | 41 | 9.6927 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9964 | 98.5399 | 99.4571 | 53.2701 | 19572 | 290 | 21802 | 119 | 100 | 84.0336 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | het | 83.0715 | 71.1515 | 99.7894 | 67.1619 | 21788 | 8834 | 21792 | 46 | 4 | 8.6957 | |
| qzeng-custom | SNP | ti | map_l125_m2_e0 | * | 83.2073 | 72.4998 | 97.6254 | 82.9474 | 21937 | 8321 | 21790 | 530 | 441 | 83.2075 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.5518 | 97.8697 | 99.2436 | 49.7895 | 21776 | 474 | 21780 | 166 | 153 | 92.1687 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6271 | 99.4292 | 99.8258 | 72.6049 | 21774 | 125 | 21771 | 38 | 37 | 97.3684 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | het | 63.7840 | 46.8782 | 99.7614 | 87.0574 | 21751 | 24648 | 21745 | 52 | 14 | 26.9231 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1949 | 97.6719 | 98.7235 | 54.4572 | 21732 | 518 | 21733 | 281 | 265 | 94.3060 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.2904 | 99.2602 | 97.3394 | 75.4562 | 21737 | 162 | 21732 | 594 | 582 | 97.9798 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 90.5721 | 88.6430 | 92.5871 | 36.0947 | 21753 | 2787 | 21720 | 1739 | 1695 | 97.4698 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1514 | 97.5955 | 98.7136 | 53.8931 | 21715 | 535 | 21716 | 283 | 267 | 94.3463 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.4121 | 97.3169 | 99.5323 | 46.2505 | 21653 | 597 | 21709 | 102 | 62 | 60.7843 | |
| ndellapenna-hhga | INDEL | D6_15 | * | * | 86.5914 | 82.4889 | 91.1232 | 54.1208 | 21523 | 4569 | 21701 | 2114 | 1783 | 84.3425 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5991 | 99.7991 | 99.4000 | 72.8360 | 21855 | 44 | 21701 | 131 | 126 | 96.1832 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | het | 98.6823 | 98.3530 | 99.0138 | 55.4973 | 20423 | 342 | 21686 | 216 | 103 | 47.6852 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0475 | 97.3843 | 98.7198 | 54.0333 | 21668 | 582 | 21669 | 281 | 267 | 95.0178 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0288 | 97.3348 | 98.7327 | 54.0492 | 21657 | 593 | 21658 | 278 | 267 | 96.0432 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6839 | 99.4064 | 99.9631 | 71.3354 | 21769 | 130 | 21655 | 8 | 8 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | map_l100_m0_e0 | * | 99.5150 | 99.4304 | 99.5997 | 67.5390 | 21647 | 124 | 21644 | 87 | 13 | 14.9425 | |
| hfeng-pmm2 | SNP | ti | map_l100_m0_e0 | * | 99.3277 | 99.4212 | 99.2343 | 69.9178 | 21645 | 126 | 21642 | 167 | 19 | 11.3772 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.9721 | 95.9293 | 94.0338 | 60.7675 | 13197 | 560 | 21640 | 1373 | 1000 | 72.8332 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.9721 | 95.9293 | 94.0338 | 60.7675 | 13197 | 560 | 21640 | 1373 | 1000 | 72.8332 | |
| qzeng-custom | INDEL | I6_15 | * | * | 88.1501 | 86.9073 | 89.4289 | 48.1019 | 21573 | 3250 | 21640 | 2558 | 1057 | 41.3213 | |
| egarrison-hhga | INDEL | D6_15 | * | * | 86.6592 | 82.4007 | 91.3819 | 53.7350 | 21500 | 4592 | 21631 | 2040 | 1771 | 86.8137 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | * | 99.2132 | 99.3340 | 99.0926 | 69.0197 | 21626 | 145 | 21623 | 198 | 35 | 17.6768 | |
| gduggal-snapplat | INDEL | * | HG002complexvar | homalt | 81.8252 | 74.5588 | 90.6609 | 60.0040 | 20151 | 6876 | 21619 | 2227 | 779 | 34.9798 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7498 | 97.1281 | 98.3795 | 53.6051 | 21611 | 639 | 21612 | 356 | 342 | 96.0674 | |
| qzeng-custom | SNP | * | map_l125_m2_e0 | het | 84.0186 | 74.3127 | 96.6407 | 86.6277 | 21787 | 7531 | 21605 | 751 | 614 | 81.7577 | |
| dgrover-gatk | SNP | ti | map_l100_m0_e0 | * | 99.2854 | 99.2467 | 99.3242 | 70.6721 | 21607 | 164 | 21604 | 147 | 34 | 23.1293 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 50.2628 | 41.8345 | 62.9440 | 73.1508 | 18129 | 25206 | 21603 | 12718 | 4309 | 33.8811 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8814 | 97.0742 | 98.7022 | 53.8225 | 21599 | 651 | 21600 | 284 | 276 | 97.1831 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | homalt | 87.9899 | 78.9574 | 99.3560 | 60.6459 | 21947 | 5849 | 21600 | 140 | 134 | 95.7143 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7436 | 97.0652 | 98.4317 | 54.5032 | 21597 | 653 | 21590 | 344 | 335 | 97.3837 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | * | 99.4038 | 99.1778 | 99.6308 | 67.2084 | 21592 | 179 | 21589 | 80 | 22 | 27.5000 | |
| 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 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.5257 | 98.5798 | 98.4716 | 73.3734 | 21588 | 311 | 21584 | 335 | 163 | 48.6567 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 60.8792 | 59.0648 | 62.8085 | 52.6630 | 21613 | 14979 | 21581 | 12779 | 12331 | 96.4942 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.3782 | 98.4839 | 98.2727 | 72.8894 | 21567 | 332 | 21563 | 379 | 204 | 53.8259 | |