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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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81501-81550 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0520 | 97.3439 | 98.7704 | 57.5661 | 42184 | 1151 | 42011 | 523 | 468 | 89.4837 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 73.2107 | 79.5963 | 67.7737 | 81.2197 | 1104 | 283 | 1102 | 524 | 4 | 0.7634 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | het | 91.4492 | 87.0444 | 96.3236 | 84.5266 | 13733 | 2044 | 13729 | 524 | 14 | 2.6718 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| gduggal-snapvard | INDEL | * | map_l100_m0_e0 | * | 85.1994 | 91.0429 | 80.0608 | 87.9508 | 1423 | 140 | 2108 | 525 | 180 | 34.2857 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 78.4796 | 67.4314 | 93.8575 | 34.5759 | 2998 | 1448 | 8022 | 525 | 510 | 97.1429 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 64.9197 | 98.0276 | 48.5294 | 92.7910 | 497 | 10 | 495 | 525 | 34 | 6.4762 | |
| mlin-fermikit | INDEL | I16_PLUS | * | het | 86.1646 | 90.3606 | 82.3411 | 68.6094 | 2456 | 262 | 2448 | 525 | 508 | 96.7619 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e1 | het | 91.5298 | 87.1628 | 96.3575 | 84.5264 | 13892 | 2046 | 13888 | 525 | 14 | 2.6667 | |
| eyeh-varpipe | SNP | tv | map_l150_m1_e0 | het | 96.1715 | 99.6977 | 92.8862 | 79.2854 | 6925 | 21 | 6855 | 525 | 11 | 2.0952 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.9702 | 92.4431 | 95.5486 | 30.3243 | 1260 | 103 | 11269 | 525 | 504 | 96.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.2565 | 97.5239 | 96.9905 | 69.1218 | 17133 | 435 | 16952 | 526 | 189 | 35.9316 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 90.3835 | 96.3083 | 85.1454 | 76.8607 | 2974 | 114 | 3015 | 526 | 2 | 0.3802 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8898 | 99.3274 | 96.4931 | 80.2111 | 14473 | 98 | 14473 | 526 | 28 | 5.3232 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8898 | 99.3274 | 96.4931 | 80.2111 | 14473 | 98 | 14473 | 526 | 28 | 5.3232 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e0 | * | 88.3689 | 80.8253 | 97.4657 | 81.7790 | 20233 | 4800 | 20229 | 526 | 16 | 3.0418 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6217 | 99.0631 | 98.1843 | 79.0142 | 28443 | 269 | 28443 | 526 | 29 | 5.5133 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6217 | 99.0631 | 98.1843 | 79.0142 | 28443 | 269 | 28443 | 526 | 29 | 5.5133 | |
| rpoplin-dv42 | INDEL | D6_15 | * | * | 97.4536 | 96.9493 | 97.9633 | 52.8335 | 25296 | 796 | 25300 | 526 | 501 | 95.2471 | |
| qzeng-custom | SNP | tv | HG002complexvar | * | 99.0948 | 98.4189 | 99.7800 | 23.2771 | 242263 | 3892 | 238613 | 526 | 243 | 46.1977 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | het | 83.9323 | 82.2912 | 85.6402 | 78.9688 | 3369 | 725 | 3137 | 526 | 520 | 98.8593 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 91.7959 | 97.7681 | 86.5114 | 40.4602 | 3373 | 77 | 3380 | 527 | 26 | 4.9336 | |
| ciseli-custom | SNP | tv | map_l150_m0_e0 | het | 67.3971 | 60.2533 | 76.4627 | 88.5079 | 1713 | 1130 | 1712 | 527 | 18 | 3.4156 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 58.5210 | 78.7755 | 46.5517 | 55.0388 | 386 | 104 | 459 | 527 | 522 | 99.0512 | |
| jmaeng-gatk | SNP | tv | map_l100_m2_e1 | * | 88.4662 | 80.9714 | 97.4899 | 81.7669 | 20472 | 4811 | 20468 | 527 | 16 | 3.0361 | |
| jpowers-varprowl | INDEL | * | map_siren | * | 91.5569 | 90.4453 | 92.6961 | 81.8403 | 6702 | 708 | 6701 | 528 | 440 | 83.3333 | |
| ckim-dragen | SNP | ti | segdup | het | 97.7495 | 99.7922 | 95.7888 | 93.1126 | 12005 | 25 | 12010 | 528 | 5 | 0.9470 | |
| ciseli-custom | INDEL | * | map_l100_m2_e0 | het | 73.2740 | 70.9580 | 75.7464 | 88.9861 | 1637 | 670 | 1649 | 528 | 311 | 58.9015 | |
| gduggal-snapplat | SNP | ti | * | homalt | 99.4971 | 99.0644 | 99.9337 | 17.3977 | 795526 | 7513 | 795327 | 528 | 217 | 41.0985 | |
| gduggal-snapvard | SNP | ti | map_l250_m0_e0 | het | 74.2218 | 92.7195 | 61.8773 | 94.8028 | 866 | 68 | 857 | 528 | 16 | 3.0303 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 46.7522 | 70.4861 | 34.9754 | 65.3140 | 203 | 85 | 284 | 528 | 66 | 12.5000 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | * | 99.4275 | 99.5674 | 99.2880 | 67.0766 | 73644 | 320 | 73633 | 528 | 81 | 15.3409 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.6355 | 82.0408 | 50.6542 | 55.8581 | 402 | 88 | 542 | 528 | 513 | 97.1591 | |
| ckim-isaac | INDEL | I6_15 | HG002compoundhet | het | 32.8633 | 69.2308 | 21.5453 | 64.8197 | 144 | 64 | 145 | 528 | 493 | 93.3712 | |
| ckim-dragen | INDEL | I1_5 | * | het | 99.4703 | 99.6091 | 99.3319 | 60.8221 | 78732 | 309 | 78650 | 529 | 129 | 24.3856 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.6744 | 98.6011 | 87.4197 | 85.5642 | 4088 | 58 | 3676 | 529 | 43 | 8.1285 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.1127 | 99.7563 | 96.5225 | 56.9760 | 14734 | 36 | 14683 | 529 | 422 | 79.7732 | |
| gduggal-bwaplat | INDEL | * | * | hetalt | 82.4487 | 71.6091 | 97.1551 | 71.6669 | 18072 | 7165 | 18066 | 529 | 513 | 96.9754 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | * | 99.4314 | 99.5705 | 99.2927 | 67.0857 | 74416 | 321 | 74405 | 530 | 81 | 15.2830 | |
| bgallagher-sentieon | INDEL | D1_5 | * | * | 99.5437 | 99.4494 | 99.6383 | 60.2111 | 145937 | 808 | 145993 | 530 | 397 | 74.9057 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e0 | het | 96.9118 | 97.1668 | 96.6583 | 76.0137 | 15330 | 447 | 15330 | 530 | 100 | 18.8679 | |
| qzeng-custom | SNP | ti | map_l125_m2_e0 | * | 83.2073 | 72.4998 | 97.6254 | 82.9474 | 21937 | 8321 | 21790 | 530 | 441 | 83.2075 | |
| qzeng-custom | INDEL | * | HG002complexvar | homalt | 98.4127 | 98.7679 | 98.0601 | 51.6191 | 26694 | 333 | 26841 | 531 | 325 | 61.2053 | |
| ckim-gatk | SNP | * | map_l150_m2_e0 | het | 84.9182 | 75.7364 | 96.6335 | 90.2699 | 15248 | 4885 | 15242 | 531 | 41 | 7.7213 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | * | 67.3632 | 63.4660 | 71.7703 | 95.4310 | 1355 | 780 | 1350 | 531 | 99 | 18.6441 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 55.7555 | 54.6245 | 56.9343 | 95.0071 | 691 | 574 | 702 | 531 | 51 | 9.6045 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 60.5664 | 45.6229 | 90.0673 | 45.8084 | 4779 | 5696 | 4815 | 531 | 472 | 88.8889 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | het | 91.7565 | 91.2612 | 92.2573 | 87.5714 | 6339 | 607 | 6339 | 532 | 282 | 53.0075 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 33.0811 | 28.3279 | 39.7508 | 61.8410 | 349 | 883 | 351 | 532 | 502 | 94.3609 | |