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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56851-56900 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 56.8750 | 100.0000 | 39.7380 | 88.6830 | 1 | 0 | 182 | 276 | 65 | 23.5507 | |
| jli-custom | SNP | * | map_l100_m2_e0 | het | 99.2823 | 99.1336 | 99.4314 | 64.8428 | 45997 | 402 | 45994 | 263 | 62 | 23.5741 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | * | 98.3343 | 98.6615 | 98.0094 | 85.1549 | 3538 | 48 | 3545 | 72 | 17 | 23.6111 | |
| dgrover-gatk | SNP | ti | map_siren | * | 99.6765 | 99.6403 | 99.7128 | 55.1320 | 99994 | 361 | 99979 | 288 | 68 | 23.6111 | |
| ckim-isaac | SNP | tv | HG002compoundhet | het | 84.5719 | 74.3206 | 98.1038 | 53.1755 | 3473 | 1200 | 3725 | 72 | 17 | 23.6111 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e1 | * | 86.9569 | 95.6298 | 79.7263 | 90.1392 | 744 | 34 | 932 | 237 | 56 | 23.6287 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e0 | * | 73.9169 | 58.8210 | 99.4361 | 88.9350 | 9699 | 6790 | 9699 | 55 | 13 | 23.6364 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e0 | het | 78.7735 | 65.3227 | 99.2001 | 90.4805 | 6821 | 3621 | 6821 | 55 | 13 | 23.6364 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m1_e0 | het | 79.1153 | 74.3590 | 84.5216 | 89.5868 | 899 | 310 | 901 | 165 | 39 | 23.6364 | |
| ltrigg-rtg2 | SNP | * | HG002compoundhet | het | 99.2921 | 98.9773 | 99.6090 | 42.0270 | 14033 | 145 | 14011 | 55 | 13 | 23.6364 | |
| cchapple-custom | SNP | * | map_l250_m1_e0 | het | 95.0712 | 95.5205 | 94.6261 | 91.1826 | 4542 | 213 | 4543 | 258 | 61 | 23.6434 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8251 | 98.5087 | 93.2839 | 75.9171 | 6143 | 93 | 6167 | 444 | 105 | 23.6486 | |
| jpowers-varprowl | SNP | tv | map_l125_m1_e0 | het | 96.3069 | 96.4448 | 96.1694 | 78.7859 | 9766 | 360 | 9766 | 389 | 92 | 23.6504 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | het | 69.2403 | 61.1765 | 79.7527 | 88.3612 | 520 | 330 | 516 | 131 | 31 | 23.6641 | |
| gduggal-snapvard | INDEL | * | map_l250_m2_e1 | * | 77.7498 | 91.2913 | 67.7067 | 95.6730 | 304 | 29 | 434 | 207 | 49 | 23.6715 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e0 | het | 93.0663 | 97.7346 | 88.8235 | 94.2157 | 302 | 7 | 302 | 38 | 9 | 23.6842 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 73.3083 | 94.2029 | 60.0000 | 83.8710 | 65 | 4 | 57 | 38 | 9 | 23.6842 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 0.0000 | 0.0000 | 21.6495 | 88.8634 | 0 | 0 | 21 | 76 | 18 | 23.6842 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.1500 | 99.3519 | 98.9488 | 79.8585 | 10731 | 70 | 10731 | 114 | 27 | 23.6842 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e0 | * | 87.0891 | 95.8060 | 79.8261 | 90.0965 | 731 | 32 | 918 | 232 | 55 | 23.7069 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.3383 | 88.9709 | 89.7087 | 51.9572 | 7470 | 926 | 12596 | 1445 | 343 | 23.7370 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | het | 97.2051 | 97.0928 | 97.3176 | 90.2537 | 5043 | 151 | 5043 | 139 | 33 | 23.7410 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | het | 71.4817 | 86.2595 | 61.0268 | 91.9453 | 1695 | 270 | 1688 | 1078 | 256 | 23.7477 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e1 | * | 94.4490 | 93.5281 | 95.3881 | 87.4419 | 2081 | 144 | 2089 | 101 | 24 | 23.7624 | |
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 89.3508 | 81.7668 | 98.4855 | 74.7866 | 28961 | 6458 | 29002 | 446 | 106 | 23.7668 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6816 | 97.8606 | 97.5032 | 50.0471 | 17794 | 389 | 17573 | 450 | 107 | 23.7778 | |
| gduggal-snapvard | INDEL | * | map_l250_m2_e0 | * | 77.7005 | 91.2387 | 67.6609 | 95.5856 | 302 | 29 | 431 | 206 | 49 | 23.7864 | |
| gduggal-bwavard | INDEL | C6_15 | * | het | 73.0769 | 100.0000 | 57.5758 | 94.9772 | 7 | 0 | 171 | 126 | 30 | 23.8095 | |
| gduggal-bwafb | INDEL | * | map_l125_m0_e0 | * | 96.5071 | 95.4649 | 97.5723 | 88.6736 | 842 | 40 | 844 | 21 | 5 | 23.8095 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m1_e0 | het | 95.7437 | 95.6790 | 95.8084 | 86.4814 | 465 | 21 | 480 | 21 | 5 | 23.8095 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m2_e0 | het | 95.7357 | 95.5734 | 95.8984 | 87.7950 | 475 | 22 | 491 | 21 | 5 | 23.8095 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m2_e1 | het | 95.8267 | 95.6693 | 95.9847 | 87.8457 | 486 | 22 | 502 | 21 | 5 | 23.8095 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.5425 | 98.6389 | 98.4462 | 84.2913 | 2609 | 36 | 2661 | 42 | 10 | 23.8095 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 19.2308 | 93.6893 | 0 | 0 | 5 | 21 | 5 | 23.8095 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6894 | 98.0769 | 99.3097 | 69.5160 | 2958 | 58 | 3021 | 21 | 5 | 23.8095 | |
| jpowers-varprowl | SNP | tv | map_l150_m1_e0 | het | 95.7277 | 95.9689 | 95.4878 | 82.3230 | 6666 | 280 | 6666 | 315 | 75 | 23.8095 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | het | 96.0823 | 94.8235 | 97.3750 | 74.4000 | 806 | 44 | 779 | 21 | 5 | 23.8095 | |
| bgallagher-sentieon | SNP | tv | HG002compoundhet | het | 99.6043 | 99.6576 | 99.5511 | 55.0192 | 4657 | 16 | 4657 | 21 | 5 | 23.8095 | |
| ckim-isaac | INDEL | D16_PLUS | HG002complexvar | homalt | 68.6813 | 56.0554 | 88.6486 | 67.8819 | 162 | 127 | 164 | 21 | 5 | 23.8095 | |
| ltrigg-rtg1 | SNP | * | map_l100_m1_e0 | * | 99.3061 | 98.8274 | 99.7894 | 56.8168 | 71554 | 849 | 71550 | 151 | 36 | 23.8411 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e0 | * | 97.6510 | 97.6471 | 97.6549 | 73.7409 | 24444 | 589 | 24444 | 587 | 140 | 23.8501 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.3847 | 84.0798 | 97.7117 | 90.1711 | 24141 | 4571 | 24169 | 566 | 135 | 23.8516 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e1 | * | 97.6564 | 97.6506 | 97.6622 | 73.7732 | 24689 | 594 | 24689 | 591 | 141 | 23.8579 | |
| anovak-vg | SNP | * | map_siren | * | 88.0035 | 90.6441 | 85.5124 | 59.7358 | 132547 | 13681 | 130863 | 22171 | 5290 | 23.8600 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | * | 79.2839 | 86.0062 | 73.5363 | 80.1925 | 9766 | 1589 | 9759 | 3512 | 838 | 23.8610 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | * | 99.3781 | 99.3327 | 99.4236 | 73.9461 | 30365 | 204 | 30361 | 176 | 42 | 23.8636 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 79.2799 | 83.4829 | 75.4797 | 66.1968 | 3255 | 644 | 3186 | 1035 | 247 | 23.8647 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e0 | * | 97.8795 | 98.4497 | 97.3158 | 80.1688 | 20194 | 318 | 20194 | 557 | 133 | 23.8779 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | het | 98.2282 | 98.4453 | 98.0121 | 79.6044 | 19820 | 313 | 19820 | 402 | 96 | 23.8806 | |