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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14601-14650 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | tv | map_l150_m2_e0 | * | 99.2922 | 98.8287 | 99.7600 | 74.2574 | 11222 | 133 | 11222 | 27 | 12 | 44.4444 | |
| egarrison-hhga | SNP | tv | map_l150_m2_e1 | * | 99.3012 | 98.8437 | 99.7631 | 74.2719 | 11369 | 133 | 11369 | 27 | 12 | 44.4444 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.8170 | 96.5624 | 74.0438 | 56.3581 | 3736 | 133 | 4259 | 1493 | 1471 | 98.5265 | |
| dgrover-gatk | INDEL | D16_PLUS | * | * | 97.8781 | 98.0395 | 97.7172 | 70.6733 | 6651 | 133 | 6635 | 155 | 103 | 66.4516 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.3248 | 99.2165 | 99.4333 | 71.0574 | 16842 | 133 | 16845 | 96 | 85 | 88.5417 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.3248 | 99.2165 | 99.4333 | 71.0574 | 16842 | 133 | 16845 | 96 | 85 | 88.5417 | |
| mlin-fermikit | INDEL | * | segdup | * | 95.7518 | 94.7966 | 96.7265 | 92.3178 | 2423 | 133 | 2423 | 82 | 67 | 81.7073 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 133 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 40.3615 | 29.2553 | 65.0602 | 70.8772 | 55 | 133 | 54 | 29 | 19 | 65.5172 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 88.9998 | 98.0021 | 81.5123 | 84.1232 | 6524 | 133 | 6565 | 1489 | 141 | 9.4694 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 133 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 28.4211 | 61.3821 | 0 | 133 | 27 | 68 | 23 | 33.8235 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 75.6451 | 61.5607 | 98.0861 | 70.4802 | 213 | 133 | 205 | 4 | 4 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 12.5828 | 0.0000 | 0.0000 | 19 | 132 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D1_5 | map_l125_m1_e0 | het | 85.0662 | 81.8182 | 88.5827 | 93.2602 | 594 | 132 | 675 | 87 | 20 | 22.9885 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 16.2560 | 11.4094 | 28.2609 | 78.7037 | 17 | 132 | 13 | 33 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 58.9966 | 69.7941 | 51.0924 | 33.9623 | 305 | 132 | 304 | 291 | 291 | 100.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 89.9321 | 98.7700 | 82.5458 | 58.4226 | 10600 | 132 | 10674 | 2257 | 114 | 5.0510 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.4308 | 85.9873 | 58.2206 | 70.8929 | 810 | 132 | 818 | 587 | 575 | 97.9557 | |
| ghariani-varprowl | SNP | ti | map_l250_m2_e0 | * | 96.2305 | 97.3642 | 95.1229 | 91.2925 | 4876 | 132 | 4876 | 250 | 52 | 20.8000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2262 | 95.8879 | 96.5669 | 62.8612 | 3078 | 132 | 3066 | 109 | 106 | 97.2477 | |
| jpowers-varprowl | SNP | ti | map_l150_m1_e0 | homalt | 99.0024 | 98.1984 | 99.8196 | 73.5826 | 7195 | 132 | 7195 | 13 | 10 | 76.9231 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e0 | homalt | 99.0406 | 98.2668 | 99.8266 | 75.5854 | 7484 | 132 | 7484 | 13 | 10 | 76.9231 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.1325 | 96.5309 | 99.7881 | 46.4918 | 3673 | 132 | 3767 | 8 | 8 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4328 | 98.7316 | 98.1358 | 49.9641 | 10275 | 132 | 10265 | 195 | 165 | 84.6154 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | homalt | 99.4823 | 99.5116 | 99.4530 | 57.3903 | 26895 | 132 | 26910 | 148 | 101 | 68.2432 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | hetalt | 95.6218 | 93.1712 | 98.2048 | 39.4536 | 1801 | 132 | 2024 | 37 | 31 | 83.7838 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | * | 98.1470 | 97.2454 | 99.0654 | 57.0085 | 4660 | 132 | 4664 | 44 | 43 | 97.7273 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7279 | 96.7327 | 96.7231 | 79.7872 | 3908 | 132 | 3601 | 122 | 95 | 77.8689 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9552 | 95.8879 | 96.0225 | 64.6127 | 3078 | 132 | 3066 | 127 | 123 | 96.8504 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.2521 | 95.5720 | 98.9924 | 51.2038 | 2849 | 132 | 2849 | 29 | 29 | 100.0000 | |
| ciseli-custom | INDEL | * | map_l150_m0_e0 | het | 64.8517 | 61.2903 | 68.8525 | 95.2903 | 209 | 132 | 210 | 95 | 45 | 47.3684 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 92.7348 | 88.8325 | 96.9957 | 40.7125 | 1050 | 132 | 226 | 7 | 7 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 88.3125 | 86.2357 | 90.4918 | 71.6894 | 827 | 132 | 828 | 87 | 68 | 78.1609 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.0917 | 93.8776 | 79.4984 | 70.7309 | 2024 | 132 | 2187 | 564 | 73 | 12.9433 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.8936 | 85.5422 | 94.7115 | 86.1932 | 781 | 132 | 788 | 44 | 4 | 9.0909 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e0 | homalt | 99.5066 | 99.2403 | 99.7743 | 69.1861 | 17243 | 132 | 17243 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e1 | homalt | 99.5110 | 99.2471 | 99.7764 | 69.2363 | 17400 | 132 | 17400 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | SNP | tv | * | homalt | 99.9702 | 99.9650 | 99.9753 | 20.9652 | 376991 | 132 | 376970 | 93 | 51 | 54.8387 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 82.3056 | 69.9317 | 100.0000 | 33.4008 | 307 | 132 | 329 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | map_l150_m1_e0 | * | 98.9126 | 98.7903 | 99.0352 | 73.1204 | 10780 | 132 | 10778 | 105 | 61 | 58.0952 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | * | 65.8291 | 50.0000 | 96.3235 | 84.3858 | 132 | 132 | 131 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 84.9987 | 79.7856 | 90.9408 | 61.8351 | 521 | 132 | 522 | 52 | 45 | 86.5385 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | * | 99.7285 | 99.6044 | 99.8530 | 57.2674 | 33231 | 132 | 33279 | 49 | 38 | 77.5510 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | * | 98.4461 | 98.3598 | 98.5325 | 90.3561 | 7856 | 131 | 7856 | 117 | 30 | 25.6410 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e0 | het | 99.2165 | 99.3060 | 99.1273 | 77.0589 | 18745 | 131 | 18741 | 165 | 34 | 20.6061 | |
| dgrover-gatk | SNP | ti | map_l125_m2_e1 | het | 99.2226 | 99.3137 | 99.1317 | 77.0880 | 18956 | 131 | 18952 | 166 | 34 | 20.4819 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | * | 98.0282 | 97.5292 | 98.5322 | 58.5722 | 5171 | 131 | 5169 | 77 | 70 | 90.9091 | |