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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5751-5800 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.0193 | 92.3530 | 97.8441 | 60.3645 | 12705 | 1052 | 12662 | 279 | 130 | 46.5950 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.0193 | 92.3530 | 97.8441 | 60.3645 | 12705 | 1052 | 12662 | 279 | 130 | 46.5950 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e1 | het | 98.4983 | 97.2647 | 99.7636 | 66.7853 | 12659 | 356 | 12661 | 30 | 5 | 16.6667 | |
| bgallagher-sentieon | SNP | ti | map_l125_m0_e0 | * | 98.9758 | 99.2086 | 98.7441 | 75.3623 | 12661 | 101 | 12659 | 161 | 31 | 19.2547 | |
| eyeh-varpipe | INDEL | I1_5 | HG002complexvar | homalt | 96.6684 | 96.6984 | 96.6384 | 45.8931 | 13004 | 444 | 12649 | 440 | 434 | 98.6364 | |
| hfeng-pmm1 | SNP | ti | map_l125_m0_e0 | * | 99.2424 | 99.0519 | 99.4336 | 73.9101 | 12641 | 121 | 12639 | 72 | 20 | 27.7778 | |
| dgrover-gatk | SNP | ti | map_l125_m0_e0 | * | 99.0401 | 99.0440 | 99.0361 | 76.9678 | 12640 | 122 | 12638 | 123 | 30 | 24.3902 | |
| cchapple-custom | INDEL | D1_5 | HG002compoundhet | * | 96.3466 | 94.8427 | 97.8989 | 66.1292 | 11604 | 631 | 12627 | 271 | 261 | 96.3100 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e1 | het | 93.6574 | 97.7641 | 89.8818 | 85.8419 | 12724 | 291 | 12623 | 1421 | 85 | 5.9817 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.7223 | 87.9766 | 95.8011 | 68.6010 | 14144 | 1933 | 12617 | 553 | 435 | 78.6618 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.7223 | 87.9766 | 95.8011 | 68.6010 | 14144 | 1933 | 12617 | 553 | 435 | 78.6618 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.6887 | 53.0607 | 60.8492 | 45.3700 | 11806 | 10444 | 12611 | 8114 | 6224 | 76.7069 | |
| ckim-dragen | SNP | ti | map_l125_m0_e0 | * | 98.1359 | 98.7776 | 97.5025 | 75.7277 | 12606 | 156 | 12610 | 323 | 39 | 12.0743 | |
| cchapple-custom | SNP | ti | map_l150_m2_e1 | het | 96.0905 | 96.8652 | 95.3281 | 81.7323 | 12607 | 408 | 12610 | 618 | 163 | 26.3754 | |
| raldana-dualsentieon | SNP | ti | map_l125_m0_e0 | * | 98.7816 | 98.7933 | 98.7699 | 72.8522 | 12608 | 154 | 12606 | 157 | 6 | 3.8217 | |
| egarrison-hhga | SNP | ti | map_l125_m0_e0 | * | 99.2437 | 98.7149 | 99.7782 | 73.5653 | 12598 | 164 | 12598 | 28 | 14 | 50.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.2475 | 93.6213 | 99.0253 | 42.3352 | 6913 | 471 | 12598 | 124 | 72 | 58.0645 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 58.6790 | 56.6022 | 60.9139 | 57.4205 | 12594 | 9656 | 12597 | 8083 | 5610 | 69.4049 | |
| rpoplin-dv42 | SNP | ti | map_l125_m0_e0 | * | 98.9475 | 98.7149 | 99.1811 | 72.7585 | 12598 | 164 | 12596 | 104 | 70 | 67.3077 | |
| 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-snapfb | SNP | ti | map_l150_m2_e1 | het | 95.8577 | 96.7115 | 95.0189 | 76.5004 | 12587 | 428 | 12590 | 660 | 337 | 51.0606 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e0 | het | 98.7101 | 97.7253 | 99.7148 | 75.0553 | 12588 | 293 | 12588 | 36 | 17 | 47.2222 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e1 | het | 98.2274 | 96.6500 | 99.8571 | 62.1754 | 12579 | 436 | 12581 | 18 | 1 | 5.5556 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | * | 98.9692 | 98.5504 | 99.3915 | 69.4510 | 12577 | 185 | 12577 | 77 | 30 | 38.9610 | |
| mlin-fermikit | SNP | ti | map_l100_m2_e0 | homalt | 75.4463 | 68.6657 | 83.7129 | 51.9470 | 12572 | 5737 | 12572 | 2446 | 2353 | 96.1979 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | * | 98.6735 | 98.5034 | 98.8442 | 76.2289 | 12571 | 191 | 12571 | 147 | 47 | 31.9728 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | het | 76.3438 | 87.3819 | 67.7816 | 62.0964 | 12389 | 1789 | 12564 | 5972 | 438 | 7.3342 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | * | 85.1190 | 75.5598 | 97.4472 | 83.5794 | 12586 | 4071 | 12559 | 329 | 276 | 83.8906 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | * | 95.3999 | 98.4093 | 92.5691 | 82.2522 | 12559 | 203 | 12557 | 1008 | 96 | 9.5238 | |
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | het | 98.5131 | 99.1551 | 97.8793 | 78.7667 | 12557 | 107 | 12554 | 272 | 40 | 14.7059 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.9828 | 69.1181 | 97.7650 | 72.5426 | 12556 | 5610 | 12554 | 287 | 244 | 85.0174 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.9828 | 69.1181 | 97.7650 | 72.5426 | 12556 | 5610 | 12554 | 287 | 244 | 85.0174 | |
| eyeh-varpipe | SNP | ti | map_l150_m2_e0 | het | 98.7657 | 99.5031 | 98.0391 | 80.4407 | 12817 | 64 | 12549 | 251 | 11 | 4.3825 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | het | 99.1347 | 99.0682 | 99.2012 | 76.1218 | 12546 | 118 | 12543 | 101 | 9 | 8.9109 | |
| jpowers-varprowl | INDEL | I6_15 | * | * | 57.4140 | 50.4492 | 66.6100 | 47.5997 | 12523 | 12300 | 12542 | 6287 | 6247 | 99.3638 | |
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | het | 81.0388 | 68.6740 | 98.8337 | 87.9988 | 12544 | 5722 | 12542 | 148 | 2 | 1.3514 | |
| dgrover-gatk | SNP | * | map_l125_m0_e0 | het | 98.7051 | 99.0287 | 98.3836 | 80.4812 | 12541 | 123 | 12538 | 206 | 40 | 19.4175 | |
| hfeng-pmm2 | SNP | * | map_l125_m0_e0 | het | 98.6818 | 99.0287 | 98.3373 | 78.8543 | 12541 | 123 | 12538 | 212 | 20 | 9.4340 | |
| gduggal-bwaplat | SNP | ti | map_l100_m0_e0 | * | 72.8908 | 57.5582 | 99.3581 | 86.0136 | 12531 | 9240 | 12537 | 81 | 26 | 32.0988 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e0 | het | 98.4904 | 97.2440 | 99.7691 | 66.6179 | 12526 | 355 | 12529 | 29 | 5 | 17.2414 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 93.9690 | 91.1857 | 96.9275 | 72.3266 | 14204 | 1373 | 12524 | 397 | 332 | 83.6272 | |
| eyeh-varpipe | SNP | ti | map_l125_m0_e0 | * | 99.0106 | 99.6082 | 98.4201 | 77.7397 | 12712 | 50 | 12521 | 201 | 11 | 5.4726 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | * | 97.4197 | 98.0724 | 96.7757 | 78.9680 | 12516 | 246 | 12516 | 417 | 104 | 24.9400 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.2768 | 89.5307 | 99.5544 | 31.1699 | 12323 | 1441 | 12511 | 56 | 50 | 89.2857 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 75.6874 | 87.3937 | 66.7467 | 68.5588 | 12021 | 1734 | 12511 | 6233 | 2150 | 34.4938 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 75.6874 | 87.3937 | 66.7467 | 68.5588 | 12021 | 1734 | 12511 | 6233 | 2150 | 34.4938 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | * | 98.8454 | 97.9392 | 99.7685 | 71.9216 | 12499 | 263 | 12499 | 29 | 16 | 55.1724 | |
| qzeng-custom | SNP | * | map_l125_m2_e1 | homalt | 83.7240 | 72.4219 | 99.2062 | 67.7495 | 12697 | 4835 | 12498 | 100 | 99 | 99.0000 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | het | 98.9783 | 98.6892 | 99.2691 | 75.8999 | 12498 | 166 | 12495 | 92 | 24 | 26.0870 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | het | 93.6309 | 97.7486 | 89.8461 | 85.7790 | 12591 | 290 | 12494 | 1412 | 84 | 5.9490 | |