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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6901-6950 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.5547 | 62.0408 | 99.9333 | 74.4573 | 10488 | 6417 | 10488 | 7 | 4 | 57.1429 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 96.2877 | 93.2540 | 99.5255 | 58.2114 | 10423 | 754 | 10487 | 50 | 46 | 92.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | het | 99.0786 | 99.3556 | 98.8030 | 77.7194 | 10485 | 68 | 10483 | 127 | 22 | 17.3228 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.5644 | 95.3537 | 63.9609 | 48.2339 | 6403 | 312 | 10480 | 5905 | 4553 | 77.1041 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | het | 99.3837 | 99.3272 | 99.4402 | 72.3386 | 10482 | 71 | 10480 | 59 | 5 | 8.4746 | |
| 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 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.1902 | 91.5599 | 99.1202 | 67.5348 | 10577 | 975 | 10478 | 93 | 44 | 47.3118 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.1902 | 91.5599 | 99.1202 | 67.5348 | 10577 | 975 | 10478 | 93 | 44 | 47.3118 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | * | 66.9029 | 50.5622 | 98.8488 | 91.2579 | 10478 | 10245 | 10476 | 122 | 3 | 2.4590 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.6553 | 93.5940 | 99.9237 | 57.4617 | 10461 | 716 | 10476 | 8 | 8 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | * | 77.3920 | 77.8731 | 76.9169 | 63.1671 | 9622 | 2734 | 10473 | 3143 | 1735 | 55.2020 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e1 | het | 99.0261 | 99.2514 | 98.8018 | 75.8168 | 10474 | 79 | 10472 | 127 | 11 | 8.6614 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002complexvar | homalt | 98.4078 | 98.9338 | 97.8875 | 56.5863 | 10485 | 113 | 10472 | 226 | 169 | 74.7788 | |
| 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 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | hetalt | 96.4336 | 93.1377 | 99.9714 | 55.3771 | 10410 | 767 | 10470 | 3 | 3 | 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 | |
| gduggal-snapvard | SNP | ti | map_l125_m1_e0 | homalt | 97.8107 | 95.9258 | 99.7712 | 66.1153 | 10595 | 450 | 10464 | 24 | 19 | 79.1667 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.8579 | 97.8289 | 84.8143 | 63.2556 | 10499 | 233 | 10461 | 1873 | 64 | 3.4170 | |
| 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 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | homalt | 99.0114 | 98.8205 | 99.2030 | 52.6484 | 10473 | 125 | 10456 | 84 | 62 | 73.8095 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | het | 93.0368 | 99.0903 | 87.6803 | 84.5388 | 10457 | 96 | 10455 | 1469 | 82 | 5.5820 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | * | 80.1461 | 78.4226 | 81.9472 | 64.9485 | 9595 | 2640 | 10454 | 2303 | 1568 | 68.0851 | |
| eyeh-varpipe | SNP | * | segdup | homalt | 99.9005 | 99.9348 | 99.8662 | 89.0870 | 10736 | 7 | 10453 | 14 | 14 | 100.0000 | |
| ckim-vqsr | SNP | * | segdup | homalt | 98.5850 | 97.2820 | 99.9235 | 88.7282 | 10451 | 292 | 10451 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | * | hetalt | 96.2953 | 92.8718 | 99.9809 | 60.6438 | 10397 | 798 | 10451 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | homalt | 98.0307 | 96.9672 | 99.1179 | 35.4971 | 10455 | 327 | 10450 | 93 | 5 | 5.3763 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | het | 99.3110 | 99.0335 | 99.5902 | 71.6922 | 10451 | 102 | 10449 | 43 | 11 | 25.5814 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1998 | 96.7133 | 99.7327 | 79.6799 | 10446 | 355 | 10447 | 28 | 3 | 10.7143 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.8755 | 94.0503 | 99.8757 | 63.2515 | 10512 | 665 | 10446 | 13 | 13 | 100.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.5597 | 97.9780 | 97.1450 | 52.3866 | 10515 | 217 | 10446 | 307 | 67 | 21.8241 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | het | 99.0048 | 98.9955 | 99.0141 | 71.4321 | 10447 | 106 | 10445 | 104 | 55 | 52.8846 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5348 | 93.8046 | 99.4286 | 27.8282 | 10417 | 688 | 10441 | 60 | 59 | 98.3333 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | * | 88.8135 | 85.9501 | 91.8743 | 43.5269 | 10516 | 1719 | 10436 | 923 | 829 | 89.8158 | |
| gduggal-bwafb | INDEL | D1_5 | HG002complexvar | homalt | 98.4856 | 98.5186 | 98.4525 | 57.9745 | 10441 | 157 | 10434 | 164 | 151 | 92.0732 | |
| ckim-dragen | INDEL | I1_5 | HG002compoundhet | hetalt | 96.3036 | 92.8872 | 99.9808 | 55.1746 | 10382 | 795 | 10432 | 2 | 2 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | het | 97.7464 | 98.8534 | 96.6639 | 79.1212 | 10432 | 121 | 10431 | 360 | 26 | 7.2222 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1282 | 96.9069 | 99.3807 | 45.7062 | 10151 | 324 | 10430 | 65 | 64 | 98.4615 | |
| jli-custom | SNP | tv | map_l125_m2_e1 | het | 99.0030 | 98.8060 | 99.2008 | 70.7055 | 10427 | 126 | 10426 | 84 | 21 | 25.0000 | |
| gduggal-bwafb | SNP | tv | map_l125_m2_e1 | het | 98.2193 | 98.7871 | 97.6581 | 76.5519 | 10425 | 128 | 10425 | 250 | 45 | 18.0000 | |
| cchapple-custom | SNP | * | HG002compoundhet | homalt | 99.5150 | 99.0818 | 99.9520 | 31.0764 | 10683 | 99 | 10419 | 5 | 5 | 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 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | het | 99.1904 | 98.6828 | 99.7032 | 70.4601 | 10414 | 139 | 10414 | 31 | 12 | 38.7097 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | * | 68.9590 | 52.8054 | 99.3512 | 89.9469 | 10409 | 9303 | 10413 | 68 | 24 | 35.2941 | |
| gduggal-bwavard | SNP | * | segdup | homalt | 98.6646 | 97.8125 | 99.5315 | 88.9251 | 10508 | 235 | 10411 | 49 | 47 | 95.9184 | |
| asubramanian-gatk | SNP | tv | map_l100_m2_e1 | * | 58.2603 | 41.1264 | 99.8655 | 87.2297 | 10398 | 14885 | 10396 | 14 | 2 | 14.2857 | |
| ckim-isaac | SNP | tv | map_l100_m2_e0 | het | 79.2946 | 65.8300 | 99.6834 | 69.5147 | 10386 | 5391 | 10389 | 33 | 8 | 24.2424 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | het | 98.8667 | 99.4350 | 98.3049 | 76.2296 | 10383 | 59 | 10381 | 179 | 22 | 12.2905 | |
| gduggal-snapplat | INDEL | D1_5 | HG002complexvar | homalt | 88.1224 | 84.5537 | 92.0057 | 61.9576 | 8961 | 1637 | 10381 | 902 | 472 | 52.3282 | |
| gduggal-snapvard | SNP | * | segdup | homalt | 98.5503 | 97.6171 | 99.5016 | 88.8814 | 10487 | 256 | 10381 | 52 | 50 | 96.1538 | |