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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79201-79250 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | het | 99.0048 | 98.9955 | 99.0141 | 71.4321 | 10447 | 106 | 10445 | 104 | 55 | 52.8846 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | het | 99.3110 | 99.0335 | 99.5902 | 71.6922 | 10451 | 102 | 10449 | 43 | 11 | 25.5814 | |
| ckim-vqsr | SNP | * | segdup | homalt | 98.5850 | 97.2820 | 99.9235 | 88.7282 | 10451 | 292 | 10451 | 8 | 8 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | HG002compoundhet | * | 88.1713 | 85.4271 | 91.0977 | 64.3947 | 10452 | 1783 | 11502 | 1124 | 856 | 76.1566 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | homalt | 98.0307 | 96.9672 | 99.1179 | 35.4971 | 10455 | 327 | 10450 | 93 | 5 | 5.3763 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | het | 93.0368 | 99.0903 | 87.6803 | 84.5388 | 10457 | 96 | 10455 | 1469 | 82 | 5.5820 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3126 | 96.8244 | 99.8472 | 79.3514 | 10458 | 343 | 10458 | 16 | 4 | 25.0000 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e1 | het | 98.8982 | 99.0998 | 98.6974 | 74.5288 | 10458 | 95 | 10456 | 138 | 1 | 0.7246 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.6553 | 93.5940 | 99.9237 | 57.4617 | 10461 | 716 | 10476 | 8 | 8 | 100.0000 | |
| ghariani-varprowl | SNP | tv | map_l125_m2_e1 | het | 96.7733 | 99.1851 | 94.4760 | 80.5468 | 10467 | 86 | 10467 | 612 | 94 | 15.3595 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8827 | 94.2729 | 99.6411 | 27.0328 | 10469 | 636 | 10551 | 38 | 38 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.2637 | 96.9355 | 99.6289 | 78.1445 | 10470 | 331 | 10470 | 39 | 11 | 28.2051 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8922 | 94.2909 | 99.6412 | 27.0291 | 10471 | 634 | 10553 | 38 | 38 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | homalt | 99.0114 | 98.8205 | 99.2030 | 52.6484 | 10473 | 125 | 10456 | 84 | 62 | 73.8095 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5054 | 94.3089 | 98.8067 | 30.3644 | 10473 | 632 | 11178 | 135 | 126 | 93.3333 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3756 | 97.0003 | 99.7905 | 79.9603 | 10477 | 324 | 10478 | 22 | 4 | 18.1818 | |
| rpoplin-dv42 | INDEL | I1_5 | * | hetalt | 96.4651 | 93.5954 | 99.5163 | 62.8772 | 10478 | 717 | 10493 | 51 | 48 | 94.1176 | |
| eyeh-varpipe | INDEL | D1_5 | HG002complexvar | homalt | 96.8706 | 98.8677 | 94.9525 | 54.3549 | 10478 | 120 | 10196 | 542 | 535 | 98.7085 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | * | 66.9029 | 50.5622 | 98.8488 | 91.2579 | 10478 | 10245 | 10476 | 122 | 3 | 2.4590 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | hetalt | 96.7731 | 93.7729 | 99.9716 | 58.2211 | 10481 | 696 | 10542 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | het | 99.3837 | 99.3272 | 99.4402 | 72.3386 | 10482 | 71 | 10480 | 59 | 5 | 8.4746 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | het | 99.0786 | 99.3556 | 98.8030 | 77.7194 | 10485 | 68 | 10483 | 127 | 22 | 17.3228 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002complexvar | homalt | 98.4078 | 98.9338 | 97.8875 | 56.5863 | 10485 | 113 | 10472 | 226 | 169 | 74.7788 | |
| gduggal-snapvard | SNP | * | segdup | homalt | 98.5503 | 97.6171 | 99.5016 | 88.8814 | 10487 | 256 | 10381 | 52 | 50 | 96.1538 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.5547 | 62.0408 | 99.9333 | 74.4573 | 10488 | 6417 | 10488 | 7 | 4 | 57.1429 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9869 | 94.4529 | 99.6605 | 29.5910 | 10489 | 616 | 10569 | 36 | 36 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9831 | 94.4710 | 99.6324 | 29.8141 | 10491 | 614 | 10571 | 39 | 39 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9052 | 96.1507 | 99.7250 | 58.1999 | 10491 | 420 | 10518 | 29 | 27 | 93.1034 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | het | 98.8786 | 99.4409 | 98.3226 | 76.2835 | 10494 | 59 | 10492 | 179 | 22 | 12.2905 | |
| jli-custom | INDEL | I1_5 | * | hetalt | 96.7648 | 93.7740 | 99.9527 | 62.3212 | 10498 | 697 | 10559 | 5 | 5 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.8579 | 97.8289 | 84.8143 | 63.2556 | 10499 | 233 | 10461 | 1873 | 64 | 3.4170 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | homalt | 99.5212 | 99.0753 | 99.9711 | 52.6911 | 10500 | 98 | 10378 | 3 | 2 | 66.6667 | |
| ckim-isaac | SNP | tv | map_l100_m2_e1 | het | 79.3382 | 65.8928 | 99.6774 | 69.5352 | 10502 | 5436 | 10505 | 34 | 8 | 23.5294 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | homalt | 98.5958 | 99.1036 | 98.0931 | 56.9237 | 10503 | 95 | 10494 | 204 | 148 | 72.5490 | |
| ckim-vqsr | SNP | * | HG002compoundhet | homalt | 98.6617 | 97.4309 | 99.9239 | 35.4419 | 10505 | 277 | 10504 | 8 | 7 | 87.5000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | homalt | 99.5497 | 99.1413 | 99.9615 | 53.6591 | 10507 | 91 | 10381 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | SNP | * | segdup | homalt | 98.8522 | 97.8032 | 99.9239 | 88.9336 | 10507 | 236 | 10502 | 8 | 8 | 100.0000 | |
| gduggal-bwavard | SNP | * | segdup | homalt | 98.6646 | 97.8125 | 99.5315 | 88.9251 | 10508 | 235 | 10411 | 49 | 47 | 95.9184 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0481 | 94.6421 | 99.5798 | 42.9211 | 10510 | 595 | 10663 | 45 | 44 | 97.7778 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.8755 | 94.0503 | 99.8757 | 63.2515 | 10512 | 665 | 10446 | 13 | 13 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 78.7504 | 71.1059 | 88.2367 | 41.6720 | 10513 | 4272 | 11334 | 1511 | 1493 | 98.8087 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | * | 88.8259 | 85.0923 | 92.9023 | 63.5931 | 10514 | 1842 | 11309 | 864 | 824 | 95.3704 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 88.4231 | 97.9687 | 80.5725 | 52.0129 | 10514 | 218 | 10584 | 2552 | 124 | 4.8589 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.5597 | 97.9780 | 97.1450 | 52.3866 | 10515 | 217 | 10446 | 307 | 67 | 21.8241 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | * | 88.8135 | 85.9501 | 91.8743 | 43.5269 | 10516 | 1719 | 10436 | 923 | 829 | 89.8158 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.7144 | 62.2360 | 99.9715 | 73.5225 | 10521 | 6384 | 10521 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l125_m2_e1 | het | 96.8040 | 99.7441 | 94.0321 | 77.0079 | 10526 | 27 | 10415 | 661 | 13 | 1.9667 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3740 | 98.0805 | 98.6692 | 39.1607 | 10526 | 206 | 10528 | 142 | 102 | 71.8310 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.5431 | 94.7785 | 92.3395 | 52.9259 | 10528 | 580 | 10511 | 872 | 826 | 94.7248 | |