PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69401-69450 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.4553 | 98.6030 | 92.5025 | 84.0183 | 6564 | 93 | 6576 | 533 | 65 | 12.1951 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 56.5401 | 41.8750 | 87.0130 | 90.2900 | 67 | 93 | 67 | 10 | 3 | 30.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | het | 92.9134 | 93.3142 | 92.5160 | 89.8956 | 1298 | 93 | 1298 | 105 | 74 | 70.4762 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.9246 | 93.0075 | 99.0307 | 72.1673 | 1237 | 93 | 1226 | 12 | 10 | 83.3333 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1922 | 94.7487 | 99.7651 | 35.9534 | 1678 | 93 | 1699 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | homalt | 98.9229 | 98.4544 | 99.3960 | 73.5628 | 5924 | 93 | 5924 | 36 | 25 | 69.4444 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | het | 96.8404 | 97.0560 | 96.6258 | 75.3280 | 3066 | 93 | 2835 | 99 | 55 | 55.5556 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2929 | 93.9216 | 96.7048 | 85.0071 | 1437 | 93 | 1438 | 49 | 29 | 59.1837 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2929 | 93.9216 | 96.7048 | 85.0071 | 1437 | 93 | 1438 | 49 | 29 | 59.1837 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e0 | homalt | 64.6707 | 53.7313 | 81.2030 | 84.0528 | 108 | 93 | 108 | 25 | 23 | 92.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e1 | homalt | 65.2941 | 54.4118 | 81.6176 | 84.1676 | 111 | 93 | 111 | 25 | 23 | 92.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9145 | 97.8347 | 97.9944 | 55.0665 | 4202 | 93 | 4202 | 86 | 37 | 43.0233 | |
| mlin-fermikit | INDEL | * | map_siren | hetalt | 76.4268 | 62.3482 | 98.7179 | 84.3687 | 154 | 93 | 154 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | * | map_l100_m1_e0 | * | 97.9681 | 97.4066 | 98.5360 | 82.3019 | 3493 | 93 | 3500 | 52 | 13 | 25.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.7853 | 93.7709 | 100.0000 | 79.8165 | 1400 | 93 | 22 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | het | 88.3547 | 89.0588 | 87.6616 | 81.8124 | 757 | 93 | 746 | 105 | 65 | 61.9048 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9984 | 94.8103 | 99.2899 | 54.8611 | 1699 | 93 | 1678 | 12 | 9 | 75.0000 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e0 | * | 98.1873 | 97.4817 | 98.9032 | 83.5913 | 3600 | 93 | 3607 | 40 | 9 | 22.5000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m2_e1 | * | 90.6674 | 93.3333 | 88.1496 | 86.2733 | 1302 | 93 | 1815 | 244 | 114 | 46.7213 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 62.1311 | 88.2872 | 47.9310 | 90.8828 | 701 | 93 | 695 | 755 | 39 | 5.1656 | |
| gduggal-snapvard | INDEL | D16_PLUS | map_l100_m2_e1 | * | 7.4074 | 4.1237 | 36.3636 | 95.4545 | 4 | 93 | 4 | 7 | 2 | 28.5714 | |
| anovak-vg | INDEL | * | HG002compoundhet | homalt | 34.7177 | 86.4431 | 21.7206 | 63.7894 | 593 | 93 | 1939 | 6988 | 5562 | 79.5936 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 62.0854 | 55.5024 | 70.4403 | 70.2247 | 116 | 93 | 112 | 47 | 28 | 59.5745 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5369 | 99.1334 | 99.9436 | 40.3106 | 10639 | 93 | 10639 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3827 | 95.6865 | 97.0892 | 81.8383 | 2063 | 93 | 2068 | 62 | 26 | 41.9355 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | homalt | 99.7911 | 99.6654 | 99.9170 | 60.2187 | 27703 | 93 | 27703 | 23 | 18 | 78.2609 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | * | 98.4903 | 98.8356 | 98.1475 | 89.5400 | 7894 | 93 | 7894 | 149 | 32 | 21.4765 | |
| bgallagher-sentieon | SNP | ti | map_siren | homalt | 99.8535 | 99.7547 | 99.9524 | 48.7705 | 37823 | 93 | 37817 | 18 | 16 | 88.8889 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 90.2430 | 87.0293 | 93.7031 | 91.7133 | 624 | 93 | 625 | 42 | 5 | 11.9048 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 46.1295 | 40.0000 | 54.4776 | 81.4147 | 62 | 93 | 73 | 61 | 39 | 63.9344 | |
| anovak-vg | INDEL | I6_15 | map_siren | het | 45.1108 | 34.9650 | 63.5514 | 79.0607 | 50 | 93 | 68 | 39 | 11 | 28.2051 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.3637 | 80.6250 | 95.3317 | 77.1605 | 387 | 93 | 388 | 19 | 18 | 94.7368 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 64.6644 | 48.0447 | 98.8636 | 26.6667 | 86 | 93 | 87 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6834 | 94.2486 | 99.2472 | 33.8314 | 1524 | 93 | 1714 | 13 | 13 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l150_m0_e0 | * | 98.8419 | 98.8169 | 98.8670 | 81.9794 | 7768 | 93 | 7766 | 89 | 19 | 21.3483 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.1315 | 92.3957 | 98.0342 | 53.6450 | 1130 | 93 | 1147 | 23 | 21 | 91.3043 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.1176 | 93.9650 | 96.2988 | 73.4406 | 1448 | 93 | 1431 | 55 | 36 | 65.4545 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 64.5069 | 48.0447 | 98.1308 | 30.0654 | 86 | 93 | 105 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e1 | het | 82.5046 | 70.6625 | 99.1150 | 92.6095 | 224 | 93 | 224 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.8866 | 96.2470 | 99.5832 | 25.6355 | 2385 | 93 | 2389 | 10 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_siren | * | 98.0317 | 96.9052 | 99.1848 | 83.6671 | 2912 | 93 | 2920 | 24 | 8 | 33.3333 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 48.2780 | 92.0474 | 32.7195 | 37.0781 | 1088 | 94 | 1226 | 2521 | 2349 | 93.1773 | |
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | het | 96.2709 | 95.7942 | 96.7524 | 90.3659 | 2141 | 94 | 2145 | 72 | 11 | 15.2778 | |
| egarrison-hhga | INDEL | D6_15 | HG002compoundhet | het | 59.7254 | 89.0187 | 44.9378 | 47.8055 | 762 | 94 | 1336 | 1637 | 1603 | 97.9230 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.6301 | 80.4167 | 91.5663 | 79.3430 | 386 | 94 | 380 | 35 | 19 | 54.2857 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 80.4772 | 76.5586 | 84.8185 | 64.9306 | 307 | 94 | 257 | 46 | 29 | 63.0435 | |
| ckim-isaac | INDEL | D1_5 | map_l250_m2_e0 | * | 65.2174 | 48.9130 | 97.8261 | 96.9405 | 90 | 94 | 90 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.6465 | 93.3333 | 95.9971 | 67.9047 | 1316 | 94 | 1319 | 55 | 15 | 27.2727 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | homalt | 98.7906 | 98.4933 | 99.0897 | 41.6927 | 6145 | 94 | 6096 | 56 | 49 | 87.5000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 92.2021 | 88.9542 | 95.6962 | 86.1888 | 757 | 94 | 756 | 34 | 14 | 41.1765 | |