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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27251-27300 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l125_m1_e0 | * | 95.0729 | 98.8636 | 91.5621 | 79.9369 | 15834 | 182 | 15832 | 1459 | 89 | 6.1001 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.0725 | 92.1348 | 98.2036 | 72.7124 | 164 | 14 | 164 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.0725 | 92.1348 | 98.2036 | 67.3828 | 164 | 14 | 164 | 3 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.0725 | 92.1348 | 98.2036 | 72.2591 | 164 | 14 | 164 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m0_e0 | * | 95.0715 | 96.4516 | 93.7304 | 91.7974 | 299 | 11 | 299 | 20 | 6 | 30.0000 | |
| cchapple-custom | SNP | * | map_l250_m1_e0 | het | 95.0712 | 95.5205 | 94.6261 | 91.1826 | 4542 | 213 | 4543 | 258 | 61 | 23.6434 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.0712 | 90.9871 | 99.5392 | 72.7044 | 212 | 21 | 216 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0711 | 93.2886 | 96.9231 | 77.9661 | 139 | 10 | 126 | 4 | 3 | 75.0000 | |
| jli-custom | INDEL | * | HG002compoundhet | het | 95.0677 | 97.0689 | 93.1473 | 77.2493 | 3974 | 120 | 3738 | 275 | 245 | 89.0909 | |
| hfeng-pmm3 | INDEL | I6_15 | map_l100_m2_e0 | * | 95.0673 | 91.3793 | 99.0654 | 86.3520 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | map_l100_m2_e1 | * | 95.0673 | 91.3793 | 99.0654 | 86.7081 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e0 | * | 95.0673 | 91.3793 | 99.0654 | 86.6915 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | map_l100_m2_e1 | * | 95.0673 | 91.3793 | 99.0654 | 87.0303 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I6_15 | map_l100_m2_e0 | * | 95.0673 | 91.3793 | 99.0654 | 85.5405 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I6_15 | map_l100_m2_e1 | * | 95.0673 | 91.3793 | 99.0654 | 85.9580 | 106 | 10 | 106 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | map_l100_m1_e0 | * | 95.0673 | 92.9825 | 97.2477 | 85.4473 | 106 | 8 | 106 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.0673 | 90.9611 | 99.5617 | 70.9107 | 1590 | 158 | 1590 | 7 | 6 | 85.7143 | |
| gduggal-bwafb | INDEL | I1_5 | map_l250_m2_e1 | * | 95.0673 | 92.9825 | 97.2477 | 96.1714 | 106 | 8 | 106 | 3 | 1 | 33.3333 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.0673 | 96.3636 | 93.8053 | 89.8473 | 106 | 4 | 106 | 7 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0667 | 91.9708 | 98.3784 | 71.2062 | 378 | 33 | 364 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.0665 | 90.5969 | 100.0000 | 53.0086 | 1108 | 115 | 1148 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.0645 | 96.5066 | 93.6649 | 54.5130 | 1326 | 48 | 19117 | 1293 | 1186 | 91.7247 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.0639 | 91.0895 | 99.4009 | 86.9340 | 2157 | 211 | 2157 | 13 | 10 | 76.9231 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | het | 95.0637 | 93.8972 | 96.2596 | 94.5783 | 877 | 57 | 875 | 34 | 12 | 35.2941 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.0614 | 92.4309 | 97.8462 | 82.1967 | 635 | 52 | 636 | 14 | 12 | 85.7143 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 95.0613 | 99.1139 | 91.3271 | 69.3870 | 1566 | 14 | 1569 | 149 | 0 | 0.0000 | |
| ciseli-custom | SNP | ti | tech_badpromoters | homalt | 95.0609 | 95.1220 | 95.0000 | 49.3671 | 39 | 2 | 38 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | het | 95.0596 | 98.1636 | 92.1459 | 60.4443 | 17854 | 334 | 17833 | 1520 | 1222 | 80.3947 | |
| gduggal-bwafb | INDEL | D6_15 | map_l150_m2_e0 | * | 95.0594 | 92.6829 | 97.5610 | 90.7240 | 76 | 6 | 80 | 2 | 1 | 50.0000 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e0 | * | 95.0584 | 94.9017 | 95.2157 | 91.6500 | 7483 | 402 | 7483 | 376 | 93 | 24.7340 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.4829 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m2_e0 | * | 95.0570 | 94.6970 | 95.4198 | 86.1887 | 250 | 14 | 250 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.0569 | 99.3663 | 91.1057 | 57.4139 | 5645 | 36 | 5644 | 551 | 548 | 99.4555 | |
| jlack-gatk | INDEL | D16_PLUS | HG002compoundhet | hetalt | 95.0565 | 90.9751 | 99.5213 | 25.2782 | 1754 | 174 | 1871 | 9 | 9 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.0556 | 92.7536 | 97.4747 | 74.1176 | 384 | 30 | 386 | 10 | 10 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.0556 | 99.2366 | 91.2127 | 73.6696 | 520 | 4 | 519 | 50 | 40 | 80.0000 | |
| qzeng-custom | INDEL | * | tech_badpromoters | het | 95.0546 | 94.8718 | 95.2381 | 45.4545 | 37 | 2 | 40 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | SNP | tv | map_l125_m2_e1 | * | 95.0540 | 97.9288 | 92.3431 | 80.3827 | 16312 | 345 | 16257 | 1348 | 74 | 5.4896 | |
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 95.0540 | 90.9554 | 99.5394 | 57.6003 | 9292 | 924 | 9293 | 43 | 40 | 93.0233 | |
| ghariani-varprowl | INDEL | I1_5 | segdup | homalt | 95.0538 | 93.4461 | 96.7177 | 90.8251 | 442 | 31 | 442 | 15 | 11 | 73.3333 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002compoundhet | * | 95.0525 | 94.7886 | 95.3179 | 35.3692 | 2219 | 122 | 2219 | 109 | 106 | 97.2477 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0515 | 92.7419 | 97.4790 | 91.0526 | 115 | 9 | 116 | 3 | 2 | 66.6667 | |
| hfeng-pmm1 | INDEL | I16_PLUS | HG002compoundhet | * | 95.0514 | 92.7671 | 97.4510 | 52.1351 | 1988 | 155 | 1988 | 52 | 50 | 96.1538 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0512 | 93.1226 | 97.0614 | 33.7659 | 2180 | 161 | 2180 | 66 | 62 | 93.9394 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0506 | 91.1392 | 99.3127 | 70.7538 | 288 | 28 | 289 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0505 | 97.9987 | 92.2745 | 68.7494 | 3085 | 63 | 2783 | 233 | 42 | 18.0258 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.0495 | 94.1176 | 96.0000 | 76.9231 | 144 | 9 | 144 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | map_siren | het | 95.0495 | 97.9592 | 92.3077 | 92.8177 | 48 | 1 | 48 | 4 | 0 | 0.0000 | |