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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24501-24550 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | ti | map_siren | homalt | 98.3235 | 96.7850 | 99.9118 | 51.1238 | 36697 | 1219 | 36241 | 32 | 28 | 87.5000 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.8647 | 96.7839 | 94.9628 | 65.9014 | 17003 | 565 | 17476 | 927 | 381 | 41.1003 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8145 | 96.7836 | 96.8455 | 61.4159 | 32167 | 1069 | 31775 | 1035 | 815 | 78.7440 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 85.2372 | 96.7836 | 76.1521 | 58.2609 | 4303 | 143 | 4825 | 1511 | 1481 | 98.0146 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | homalt | 98.2808 | 96.7833 | 99.8254 | 89.5879 | 1715 | 57 | 1715 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l250_m2_e1 | homalt | 98.2808 | 96.7833 | 99.8254 | 88.3683 | 1715 | 57 | 1715 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m1_e0 | * | 92.4713 | 96.7831 | 88.5274 | 88.5445 | 1053 | 35 | 1034 | 134 | 19 | 14.1791 | |
| cchapple-custom | SNP | * | map_l125_m2_e1 | homalt | 98.3624 | 96.7830 | 99.9941 | 64.4456 | 16968 | 564 | 16962 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1274 | 96.7822 | 93.5283 | 79.2155 | 3910 | 130 | 3613 | 250 | 209 | 83.6000 | |
| hfeng-pmm3 | INDEL | I6_15 | * | * | 97.8954 | 96.7812 | 99.0356 | 49.5509 | 24024 | 799 | 24029 | 234 | 222 | 94.8718 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l125_m2_e0 | het | 98.0644 | 96.7807 | 99.3827 | 86.9285 | 481 | 16 | 483 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0454 | 96.7804 | 99.3438 | 49.5652 | 30962 | 1030 | 30885 | 204 | 187 | 91.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.1535 | 96.7800 | 97.5299 | 57.5288 | 17102 | 569 | 17097 | 433 | 414 | 95.6120 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2146 | 96.7797 | 99.6928 | 37.8817 | 4538 | 151 | 4543 | 14 | 2 | 14.2857 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | het | 97.3655 | 96.7790 | 97.9592 | 85.1598 | 1292 | 43 | 1296 | 27 | 3 | 11.1111 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8835 | 96.7762 | 99.0164 | 72.2070 | 1561 | 52 | 1510 | 15 | 11 | 73.3333 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | * | 97.5846 | 96.7748 | 98.4081 | 58.8477 | 5131 | 171 | 5131 | 83 | 77 | 92.7711 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3607 | 96.7742 | 100.0000 | 86.6521 | 60 | 2 | 61 | 0 | 0 | ||
| bgallagher-sentieon | SNP | ti | map_l100_m2_e1 | hetalt | 98.3607 | 96.7742 | 100.0000 | 69.6970 | 30 | 1 | 30 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.1660 | 96.7742 | 97.5610 | 90.7865 | 120 | 4 | 120 | 3 | 1 | 33.3333 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.1660 | 96.7742 | 97.5610 | 90.7029 | 120 | 4 | 120 | 3 | 1 | 33.3333 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3607 | 96.7742 | 100.0000 | 85.2300 | 60 | 2 | 61 | 0 | 0 | ||
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3607 | 96.7742 | 100.0000 | 81.6176 | 150 | 5 | 150 | 0 | 0 | ||
| jlack-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 93.7500 | 96.7742 | 90.9091 | 83.1633 | 30 | 1 | 30 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | * | map_l150_m0_e0 | het | 96.4901 | 96.7742 | 96.2076 | 90.4879 | 330 | 11 | 482 | 19 | 8 | 42.1053 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.8604 | 96.7742 | 98.9712 | 84.7887 | 480 | 16 | 481 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e1 | hetalt | 95.2381 | 96.7742 | 93.7500 | 84.5411 | 30 | 1 | 30 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | * | map_l150_m0_e0 | het | 96.0833 | 96.7742 | 95.4023 | 90.5691 | 330 | 11 | 332 | 16 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.5740 | 96.7742 | 98.3871 | 84.9148 | 60 | 2 | 61 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l150_m0_e0 | het | 97.0666 | 96.7742 | 97.3607 | 91.5698 | 330 | 11 | 332 | 9 | 2 | 22.2222 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3607 | 96.7742 | 100.0000 | 82.2823 | 60 | 2 | 59 | 0 | 0 | ||
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.0940 | 96.7742 | 97.4160 | 59.9171 | 510 | 17 | 1508 | 40 | 36 | 90.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m0_e0 | * | 95.9758 | 96.7742 | 95.1904 | 87.1920 | 480 | 16 | 475 | 24 | 3 | 12.5000 | |
| ckim-dragen | INDEL | * | map_l150_m0_e0 | het | 95.2381 | 96.7742 | 93.7500 | 93.2991 | 330 | 11 | 330 | 22 | 1 | 4.5455 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | homalt | 12.7119 | 96.7742 | 6.8027 | 58.3176 | 30 | 1 | 30 | 411 | 411 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3607 | 96.7742 | 100.0000 | 86.8534 | 60 | 2 | 61 | 0 | 0 | ||
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.5866 | 96.7742 | 98.4127 | 90.1946 | 120 | 4 | 124 | 2 | 1 | 50.0000 | |
| gduggal-snapvard | SNP | * | HG002complexvar | * | 97.8941 | 96.7741 | 99.0404 | 21.0357 | 730048 | 24336 | 708362 | 6863 | 2537 | 36.9663 | |
| ciseli-custom | SNP | tv | HG002complexvar | * | 94.9824 | 96.7736 | 93.2564 | 24.4003 | 238213 | 7942 | 236085 | 17072 | 2875 | 16.8404 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0340 | 96.7727 | 99.3285 | 36.5490 | 2069 | 69 | 2071 | 14 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3687 | 96.7718 | 97.9730 | 70.6802 | 1319 | 44 | 1305 | 27 | 14 | 51.8519 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | het | 93.3360 | 96.7693 | 90.1379 | 78.6381 | 44900 | 1499 | 44319 | 4849 | 371 | 7.6511 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 98.0558 | 96.7692 | 99.3769 | 23.2975 | 629 | 21 | 638 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | * | * | 97.6524 | 96.7691 | 98.5520 | 52.9508 | 24021 | 802 | 24026 | 353 | 331 | 93.7677 | |
| ckim-dragen | INDEL | * | map_l100_m0_e0 | het | 95.6303 | 96.7679 | 94.5192 | 88.5902 | 988 | 33 | 983 | 57 | 4 | 7.0175 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2585 | 96.7678 | 99.7959 | 68.4820 | 1467 | 49 | 1467 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1406 | 96.7672 | 99.5536 | 71.0407 | 449 | 15 | 446 | 2 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1802 | 96.7672 | 99.6350 | 61.0934 | 449 | 15 | 1092 | 4 | 4 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1406 | 96.7672 | 99.5536 | 69.6682 | 449 | 15 | 446 | 2 | 1 | 50.0000 | |