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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73751-73800 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | tv | segdup | het | 98.0147 | 96.1793 | 99.9214 | 89.5689 | 5085 | 202 | 5087 | 4 | 1 | 25.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e1 | het | 89.9622 | 84.0694 | 96.7434 | 89.9976 | 1066 | 202 | 1218 | 41 | 27 | 65.8537 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.6400 | 96.0539 | 97.2332 | 85.1791 | 4917 | 202 | 4920 | 140 | 101 | 72.1429 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7237 | 78.9364 | 93.7881 | 67.9922 | 757 | 202 | 770 | 51 | 38 | 74.5098 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5298 | 99.0776 | 99.9861 | 69.5819 | 21697 | 202 | 21585 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.0602 | 82.8959 | 98.5801 | 34.3105 | 979 | 202 | 972 | 14 | 13 | 92.8571 | |
| ltrigg-rtg2 | SNP | * | map_l250_m0_e0 | * | 94.8478 | 90.5386 | 99.5876 | 84.4949 | 1933 | 202 | 1932 | 8 | 3 | 37.5000 | |
| ndellapenna-hhga | SNP | tv | HG002compoundhet | het | 97.5455 | 95.6773 | 99.4882 | 51.9512 | 4471 | 202 | 4471 | 23 | 15 | 65.2174 | |
| raldana-dualsentieon | SNP | ti | map_l125_m1_e0 | het | 98.7264 | 98.8941 | 98.5593 | 72.2989 | 18064 | 202 | 18060 | 264 | 3 | 1.1364 | |
| jli-custom | SNP | * | map_l150_m0_e0 | het | 98.2666 | 97.4559 | 99.0908 | 76.5432 | 7738 | 202 | 7738 | 71 | 22 | 30.9859 | |
| jmaeng-gatk | SNP | * | segdup | * | 98.5236 | 99.2803 | 97.7783 | 93.6584 | 27865 | 202 | 27859 | 633 | 14 | 2.2117 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.7454 | 95.7670 | 99.8073 | 46.5308 | 4570 | 202 | 4661 | 9 | 9 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | * | homalt | 99.7747 | 99.5851 | 99.9650 | 56.3253 | 48723 | 203 | 48596 | 17 | 16 | 94.1176 | |
| jli-custom | SNP | * | map_l250_m1_e0 | * | 98.1678 | 97.1891 | 99.1664 | 85.6613 | 7019 | 203 | 7019 | 59 | 29 | 49.1525 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2315 | 88.9794 | 97.9104 | 67.2852 | 1639 | 203 | 1640 | 35 | 28 | 80.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m2_e0 | * | 97.8118 | 95.9465 | 99.7510 | 83.9867 | 4805 | 203 | 4808 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | I1_5 | map_l100_m0_e0 | het | 47.2130 | 37.7301 | 63.0631 | 92.0173 | 123 | 203 | 140 | 82 | 10 | 12.1951 | |
| anovak-vg | SNP | ti | func_cds | het | 98.3229 | 97.6129 | 99.0434 | 32.3272 | 8301 | 203 | 8283 | 80 | 49 | 61.2500 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.3819 | 93.7500 | 91.0531 | 69.7462 | 3045 | 203 | 3104 | 305 | 131 | 42.9508 | |
| asubramanian-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 91.2346 | 85.1608 | 98.2412 | 87.9589 | 1165 | 203 | 1173 | 21 | 4 | 19.0476 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | * | 99.6774 | 99.5898 | 99.7651 | 64.5884 | 49282 | 203 | 49275 | 116 | 21 | 18.1034 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 81.2500 | 70.8752 | 95.1830 | 49.0677 | 494 | 203 | 494 | 25 | 23 | 92.0000 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | homalt | 99.3843 | 98.8697 | 99.9044 | 57.5961 | 17757 | 203 | 17757 | 17 | 15 | 88.2353 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | * | 95.3999 | 98.4093 | 92.5691 | 82.2522 | 12559 | 203 | 12557 | 1008 | 96 | 9.5238 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 48.4716 | 84.3364 | 34.0089 | 80.1936 | 1093 | 203 | 1141 | 2214 | 143 | 6.4589 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 62.8906 | 92.3251 | 47.6872 | 81.6922 | 2442 | 203 | 2464 | 2703 | 33 | 1.2209 | |
| ckim-dragen | SNP | tv | HG002complexvar | * | 99.9267 | 99.9175 | 99.9359 | 22.5633 | 245949 | 203 | 246200 | 158 | 80 | 50.6329 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.4541 | 88.1148 | 99.4822 | 29.4843 | 1505 | 203 | 1537 | 8 | 8 | 100.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1128 | 99.3482 | 98.8786 | 72.9414 | 30940 | 203 | 30949 | 351 | 41 | 11.6809 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1128 | 99.3482 | 98.8786 | 72.9414 | 30940 | 203 | 30949 | 351 | 41 | 11.6809 | |
| cchapple-custom | SNP | ti | map_l250_m2_e1 | * | 96.4747 | 96.0008 | 96.9534 | 90.2115 | 4873 | 203 | 4869 | 153 | 42 | 27.4510 | |
| cchapple-custom | SNP | tv | map_l150_m1_e0 | het | 95.1002 | 97.0775 | 93.2019 | 81.0524 | 6743 | 203 | 6759 | 493 | 81 | 16.4300 | |
| cchapple-custom | INDEL | D6_15 | * | het | 98.5018 | 98.2488 | 98.7561 | 48.6146 | 11389 | 203 | 20403 | 257 | 215 | 83.6576 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 62.4672 | 47.4093 | 91.5423 | 97.1706 | 183 | 203 | 184 | 17 | 6 | 35.2941 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 7.2838 | 3.7915 | 92.3077 | 60.6061 | 8 | 203 | 12 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e0 | * | 95.6186 | 97.4255 | 93.8776 | 91.4090 | 7682 | 203 | 7682 | 501 | 87 | 17.3653 | |
| rpoplin-dv42 | SNP | ti | * | homalt | 99.9800 | 99.9747 | 99.9853 | 16.8487 | 802835 | 203 | 802832 | 118 | 106 | 89.8305 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | het | 98.7211 | 97.8643 | 99.5931 | 37.6968 | 9302 | 203 | 9300 | 38 | 21 | 55.2632 | |
| egarrison-hhga | SNP | tv | map_l100_m1_e0 | * | 99.4963 | 99.1715 | 99.8233 | 63.2033 | 24298 | 203 | 24298 | 43 | 19 | 44.1860 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.4541 | 88.1148 | 99.4822 | 29.4843 | 1505 | 203 | 1537 | 8 | 8 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0937 | 98.6068 | 97.5858 | 73.2956 | 14368 | 203 | 14552 | 360 | 14 | 3.8889 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0937 | 98.6068 | 97.5858 | 73.2956 | 14368 | 203 | 14552 | 360 | 14 | 3.8889 | |
| qzeng-custom | SNP | ti | segdup | * | 98.7450 | 98.9558 | 98.5351 | 91.7233 | 19333 | 204 | 19237 | 286 | 45 | 15.7343 | |
| mlin-fermikit | INDEL | I6_15 | HG002complexvar | het | 91.0577 | 91.3376 | 90.7795 | 57.5294 | 2151 | 204 | 2166 | 220 | 217 | 98.6364 | |
| ndellapenna-hhga | SNP | tv | map_l125_m1_e0 | het | 98.8001 | 97.9854 | 99.6285 | 68.0340 | 9922 | 204 | 9922 | 37 | 16 | 43.2432 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 90.6327 | 87.6737 | 93.7984 | 45.3197 | 1451 | 204 | 1452 | 96 | 90 | 93.7500 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | homalt | 98.7927 | 97.7441 | 99.8639 | 61.4588 | 8839 | 204 | 8807 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | SNP | ti | map_siren | * | 99.4355 | 99.7967 | 99.0768 | 57.9702 | 100151 | 204 | 97874 | 912 | 55 | 6.0307 | |
| jlack-gatk | SNP | ti | map_l100_m2_e0 | homalt | 99.3934 | 98.8858 | 99.9062 | 60.1223 | 18105 | 204 | 18105 | 17 | 15 | 88.2353 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0126 | 98.9729 | 99.0524 | 59.2954 | 19658 | 204 | 19651 | 188 | 96 | 51.0638 | |