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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18401-18450 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4013 | 98.5588 | 98.2442 | 73.3744 | 1231 | 18 | 1231 | 22 | 15 | 68.1818 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0544 | 98.5583 | 99.5556 | 65.3417 | 30694 | 449 | 30694 | 137 | 9 | 6.5693 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0544 | 98.5583 | 99.5556 | 65.3417 | 30694 | 449 | 30694 | 137 | 9 | 6.5693 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 95.0802 | 98.5583 | 91.8392 | 92.3713 | 752 | 11 | 754 | 67 | 5 | 7.4627 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.1881 | 98.5569 | 99.8274 | 68.1681 | 1161 | 17 | 1157 | 2 | 1 | 50.0000 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | homalt | 99.1107 | 98.5566 | 99.6710 | 69.6349 | 16661 | 244 | 16661 | 55 | 40 | 72.7273 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | het | 99.1867 | 98.5563 | 99.8253 | 59.8421 | 2321 | 34 | 2285 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1405 | 98.5558 | 99.7323 | 38.6532 | 2252 | 33 | 2235 | 6 | 1 | 16.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e0 | het | 98.3591 | 98.5556 | 98.1635 | 91.6192 | 3207 | 47 | 3207 | 60 | 16 | 26.6667 | |
| ghariani-varprowl | SNP | * | map_l125_m2_e0 | homalt | 99.1058 | 98.5554 | 99.6624 | 70.0500 | 17124 | 251 | 17124 | 58 | 39 | 67.2414 | |
| gduggal-bwavard | INDEL | D1_5 | segdup | het | 93.9882 | 98.5549 | 89.8260 | 96.1006 | 682 | 10 | 671 | 76 | 57 | 75.0000 | |
| gduggal-bwafb | INDEL | D1_5 | segdup | het | 98.9321 | 98.5549 | 99.3122 | 94.6465 | 682 | 10 | 722 | 5 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | segdup | het | 98.8393 | 98.5549 | 99.1254 | 93.5804 | 682 | 10 | 680 | 6 | 2 | 33.3333 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | het | 98.3585 | 98.5547 | 98.1630 | 68.8817 | 1091 | 16 | 855 | 16 | 12 | 75.0000 | |
| astatham-gatk | SNP | tv | HG002compoundhet | * | 99.1767 | 98.5543 | 99.8069 | 49.0836 | 8794 | 129 | 8789 | 17 | 16 | 94.1176 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 96.5825 | 98.5542 | 94.6882 | 89.3152 | 818 | 12 | 820 | 46 | 4 | 8.6957 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7337 | 98.5542 | 96.9267 | 89.8768 | 818 | 12 | 820 | 26 | 3 | 11.5385 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | * | 99.1686 | 98.5527 | 99.7922 | 67.5463 | 44671 | 656 | 44671 | 93 | 49 | 52.6882 | |
| jli-custom | SNP | * | map_l100_m0_e0 | het | 98.8927 | 98.5522 | 99.2355 | 65.8743 | 20898 | 307 | 20898 | 161 | 48 | 29.8137 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4605 | 98.5514 | 94.4565 | 64.0006 | 2177 | 32 | 2181 | 128 | 121 | 94.5312 | |
| ndellapenna-hhga | SNP | ti | map_l125_m1_e0 | * | 99.1869 | 98.5512 | 99.8308 | 67.6959 | 28910 | 425 | 28910 | 49 | 27 | 55.1020 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 99.2701 | 98.5507 | 100.0000 | 89.7436 | 68 | 1 | 68 | 0 | 0 | ||
| egarrison-hhga | SNP | ti | HG002complexvar | hetalt | 98.5507 | 98.5507 | 98.5507 | 42.1788 | 204 | 3 | 204 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | ti | HG002complexvar | hetalt | 0.0000 | 98.5507 | 0.0000 | 0.0000 | 204 | 3 | 0 | 0 | 0 | ||
| jlack-gatk | SNP | ti | HG002complexvar | hetalt | 98.7893 | 98.5507 | 99.0291 | 39.5894 | 204 | 3 | 204 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 94.0671 | 98.5507 | 89.9736 | 92.9238 | 340 | 5 | 341 | 38 | 1 | 2.6316 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | * | 98.9692 | 98.5504 | 99.3915 | 69.4510 | 12577 | 185 | 12577 | 77 | 30 | 38.9610 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.5299 | 98.5500 | 94.5910 | 50.5417 | 2107 | 31 | 2116 | 121 | 1 | 0.8264 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1995 | 98.5500 | 99.8576 | 35.6051 | 2107 | 31 | 2104 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2056 | 98.5498 | 99.8702 | 37.4713 | 4621 | 68 | 4618 | 6 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | segdup | * | 99.1335 | 98.5494 | 99.7245 | 92.9129 | 1087 | 16 | 1086 | 3 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.9076 | 98.5488 | 99.2691 | 69.3358 | 1494 | 22 | 1494 | 11 | 2 | 18.1818 | |
| mlin-fermikit | INDEL | D1_5 | * | homalt | 97.9967 | 98.5488 | 97.4507 | 61.3393 | 48216 | 710 | 48127 | 1259 | 1234 | 98.0143 | |
| mlin-fermikit | SNP | tv | segdup | homalt | 98.3960 | 98.5485 | 98.2440 | 87.6277 | 3191 | 47 | 3189 | 57 | 49 | 85.9649 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.1883 | 98.5484 | 99.8366 | 82.3580 | 611 | 9 | 611 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e1 | homalt | 97.3013 | 98.5484 | 96.0854 | 85.4680 | 611 | 9 | 810 | 33 | 27 | 81.8182 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e1 | homalt | 98.9468 | 98.5484 | 99.3485 | 85.4812 | 611 | 9 | 610 | 4 | 4 | 100.0000 | |
| jli-custom | SNP | ti | map_l150_m2_e1 | het | 98.9202 | 98.5478 | 99.2954 | 74.8618 | 12826 | 189 | 12824 | 91 | 30 | 32.9670 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9475 | 98.5477 | 97.3545 | 86.9924 | 475 | 7 | 552 | 15 | 5 | 33.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9436 | 98.5477 | 97.3469 | 90.2488 | 475 | 7 | 477 | 13 | 2 | 15.3846 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m1_e0 | het | 89.3697 | 98.5477 | 81.7556 | 92.0269 | 475 | 7 | 475 | 106 | 19 | 17.9245 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2683 | 98.5472 | 100.0000 | 30.9086 | 2442 | 36 | 2441 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2451 | 98.5461 | 99.9540 | 42.2689 | 2169 | 32 | 2172 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1995 | 98.5461 | 99.8616 | 38.6640 | 2169 | 32 | 2164 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2222 | 98.5461 | 99.9076 | 38.9281 | 2169 | 32 | 2163 | 2 | 2 | 100.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.0874 | 98.5460 | 90.0149 | 70.2400 | 34904 | 515 | 35077 | 3891 | 30 | 0.7710 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | het | 98.3333 | 98.5458 | 98.1217 | 74.3380 | 4337 | 64 | 4336 | 83 | 43 | 51.8072 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1846 | 98.5457 | 99.8318 | 70.9620 | 63494 | 937 | 63506 | 107 | 86 | 80.3738 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | het | 98.3512 | 98.5450 | 98.1582 | 91.6782 | 3251 | 48 | 3251 | 61 | 16 | 26.2295 | |
| egarrison-hhga | SNP | ti | map_l150_m1_e0 | het | 99.1299 | 98.5449 | 99.7219 | 75.0856 | 12190 | 180 | 12190 | 34 | 13 | 38.2353 | |