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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4801-4850 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | ti | HG002compoundhet | * | 97.7572 | 99.1589 | 96.3946 | 39.7398 | 17331 | 147 | 12860 | 481 | 101 | 20.9979 | |
| eyeh-varpipe | SNP | ti | segdup | het | 97.9291 | 99.8421 | 96.0882 | 90.6738 | 12011 | 19 | 11815 | 481 | 3 | 0.6237 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | het | 96.2978 | 98.9385 | 93.7943 | 83.6297 | 7270 | 78 | 7270 | 481 | 75 | 15.5925 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.8382 | 95.5706 | 94.1169 | 36.5552 | 1273 | 59 | 7679 | 480 | 470 | 97.9167 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | * | 67.7061 | 62.3406 | 74.0821 | 90.8144 | 1369 | 827 | 1372 | 480 | 310 | 64.5833 | |
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8735 | 99.4653 | 98.2886 | 67.7942 | 27530 | 148 | 27568 | 480 | 97 | 20.2083 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5995 | 98.7927 | 98.4071 | 74.5792 | 30112 | 368 | 29653 | 480 | 385 | 80.2083 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5995 | 98.7927 | 98.4071 | 74.5792 | 30112 | 368 | 29653 | 480 | 385 | 80.2083 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | * | 85.0852 | 92.2863 | 78.9265 | 90.9345 | 1328 | 111 | 1794 | 479 | 153 | 31.9415 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 60.1249 | 45.9646 | 86.8947 | 58.2953 | 3138 | 3689 | 3176 | 479 | 423 | 88.3090 | |
| gduggal-snapplat | INDEL | I6_15 | HG002compoundhet | homalt | 4.7937 | 25.8065 | 2.6423 | 56.0714 | 8 | 23 | 13 | 479 | 433 | 90.3967 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 77.6657 | 65.6975 | 94.9658 | 82.9333 | 9038 | 4719 | 9036 | 479 | 120 | 25.0522 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 77.6657 | 65.6975 | 94.9658 | 82.9333 | 9038 | 4719 | 9036 | 479 | 120 | 25.0522 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 61.2415 | 62.4812 | 60.0500 | 60.0866 | 831 | 499 | 720 | 479 | 472 | 98.5386 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.8457 | 34.5247 | 50.0000 | 39.0585 | 454 | 861 | 479 | 479 | 439 | 91.6493 | |
| eyeh-varpipe | SNP | tv | func_cds | * | 94.7737 | 99.9771 | 90.0850 | 32.1750 | 4370 | 1 | 4343 | 478 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | func_cds | het | 91.6856 | 99.9624 | 84.6746 | 34.5435 | 2656 | 1 | 2641 | 478 | 0 | 0.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.4479 | 95.7527 | 89.3636 | 86.9652 | 4058 | 180 | 4016 | 478 | 89 | 18.6192 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6759 | 98.9370 | 98.4161 | 73.8431 | 30156 | 324 | 29701 | 478 | 383 | 80.1255 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6759 | 98.9370 | 98.4161 | 73.8431 | 30156 | 324 | 29701 | 478 | 383 | 80.1255 | |
| jlack-gatk | SNP | * | HG002complexvar | het | 99.8914 | 99.8855 | 99.8973 | 19.1615 | 464964 | 533 | 464834 | 478 | 152 | 31.7992 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.5431 | 70.2703 | 56.3470 | 39.8682 | 104 | 44 | 617 | 478 | 306 | 64.0167 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 58.3357 | 89.3782 | 43.2977 | 89.0534 | 345 | 41 | 365 | 478 | 34 | 7.1130 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 78.3315 | 84.6966 | 72.8563 | 89.5793 | 1284 | 232 | 1283 | 478 | 11 | 2.3013 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | * | 88.1419 | 80.3355 | 97.6286 | 80.4620 | 19683 | 4818 | 19679 | 478 | 17 | 3.5565 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.0945 | 98.9337 | 99.2558 | 72.1244 | 63744 | 687 | 63755 | 478 | 442 | 92.4686 | |
| raldana-dualsentieon | SNP | * | map_l100_m2_e0 | het | 99.0893 | 99.2047 | 98.9741 | 68.2725 | 46030 | 369 | 46019 | 477 | 7 | 1.4675 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 90.8156 | 88.7866 | 92.9396 | 44.8670 | 5978 | 755 | 6279 | 477 | 242 | 50.7338 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 47.0909 | 41.9643 | 53.6443 | 57.0892 | 517 | 715 | 552 | 477 | 405 | 84.9057 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 37.1500 | 27.9605 | 55.3371 | 59.9550 | 595 | 1533 | 591 | 477 | 362 | 75.8910 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 43.1111 | 37.0091 | 51.6227 | 61.5894 | 245 | 417 | 509 | 477 | 324 | 67.9245 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 40.8570 | 44.3272 | 37.8906 | 67.8795 | 168 | 211 | 291 | 477 | 388 | 81.3417 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | * | 95.4295 | 97.2861 | 93.6425 | 90.9971 | 7026 | 196 | 7026 | 477 | 84 | 17.6101 | |
| gduggal-snapvard | SNP | * | HG002complexvar | homalt | 98.1658 | 96.5628 | 99.8230 | 18.7873 | 278656 | 9919 | 269038 | 477 | 269 | 56.3941 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | het | 96.2824 | 98.9244 | 93.7778 | 83.5770 | 7174 | 78 | 7174 | 476 | 75 | 15.7563 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | het | 97.2764 | 97.2566 | 97.2962 | 48.7706 | 17690 | 499 | 17129 | 476 | 444 | 93.2773 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 90.0673 | 98.7902 | 82.7599 | 87.1462 | 2613 | 32 | 2285 | 476 | 24 | 5.0420 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 81.0114 | 86.8467 | 75.9109 | 68.6846 | 1479 | 224 | 1500 | 476 | 205 | 43.0672 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | het | 91.3400 | 86.6511 | 96.5654 | 83.3110 | 13359 | 2058 | 13355 | 475 | 16 | 3.3684 | |
| ckim-gatk | INDEL | * | HG002compoundhet | het | 93.4586 | 98.5589 | 88.8602 | 79.6039 | 4035 | 59 | 3789 | 475 | 465 | 97.8947 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 84.9187 | 82.8004 | 87.1483 | 74.4451 | 3211 | 667 | 3221 | 475 | 17 | 3.5790 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | homalt | 63.4446 | 78.5714 | 53.2020 | 84.3340 | 539 | 147 | 540 | 475 | 429 | 90.3158 | |
| gduggal-bwafb | INDEL | I6_15 | HG002compoundhet | homalt | 9.4162 | 80.6452 | 5.0000 | 41.3146 | 25 | 6 | 25 | 475 | 473 | 99.5789 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | * | 90.3682 | 92.8381 | 88.0262 | 88.0620 | 3487 | 269 | 3492 | 475 | 199 | 41.8947 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 81.9462 | 89.6097 | 75.4902 | 79.0668 | 1630 | 189 | 1463 | 475 | 410 | 86.3158 | |
| qzeng-custom | SNP | ti | map_l125_m2_e0 | het | 83.1453 | 72.9498 | 96.6538 | 86.6306 | 13770 | 5106 | 13720 | 475 | 387 | 81.4737 | |
| qzeng-custom | SNP | ti | map_l125_m2_e1 | het | 83.2669 | 73.1126 | 96.6968 | 86.6188 | 13955 | 5132 | 13905 | 475 | 387 | 81.4737 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 48.8684 | 40.9881 | 60.5000 | 69.8341 | 755 | 1087 | 726 | 474 | 272 | 57.3840 | |
| ckim-dragen | SNP | ti | map_l150_m1_e0 | het | 97.4739 | 98.7146 | 96.2639 | 80.0619 | 12211 | 159 | 12213 | 474 | 51 | 10.7595 | |