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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63551-63600 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | ti | map_l150_m2_e1 | homalt | 98.6309 | 97.4522 | 99.8384 | 73.3079 | 7497 | 196 | 7414 | 12 | 9 | 75.0000 | |
| bgallagher-sentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 49.3464 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 46.1806 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 71.0414 | 97.4522 | 55.8935 | 62.8531 | 153 | 4 | 147 | 116 | 4 | 3.4483 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 47.6351 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | SNP | * | tech_badpromoters | * | 95.3271 | 97.4522 | 93.2927 | 57.8406 | 153 | 4 | 153 | 11 | 2 | 18.1818 | |
| jpowers-varprowl | SNP | * | map_l125_m0_e0 | homalt | 98.5610 | 97.4523 | 99.6952 | 74.0600 | 6541 | 171 | 6541 | 20 | 11 | 55.0000 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | het | 98.2582 | 97.4538 | 99.0760 | 23.1907 | 146896 | 3838 | 144431 | 1347 | 888 | 65.9243 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e1 | het | 97.5129 | 97.4538 | 97.5721 | 90.4931 | 3215 | 84 | 3215 | 80 | 23 | 28.7500 | |
| gduggal-bwafb | INDEL | * | HG002complexvar | homalt | 97.6327 | 97.4544 | 97.8116 | 53.5251 | 26339 | 688 | 26326 | 589 | 564 | 95.7555 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.2267 | 97.4545 | 99.0111 | 63.3439 | 804 | 21 | 801 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.2267 | 97.4545 | 99.0111 | 63.3439 | 804 | 21 | 801 | 8 | 8 | 100.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.4089 | 97.4545 | 82.5903 | 53.4716 | 804 | 21 | 1760 | 371 | 336 | 90.5660 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 89.4089 | 97.4545 | 82.5903 | 53.4716 | 804 | 21 | 1760 | 371 | 336 | 90.5660 | |
| raldana-dualsentieon | SNP | * | map_l250_m1_e0 | het | 97.3427 | 97.4553 | 97.2304 | 88.8130 | 4634 | 121 | 4634 | 132 | 3 | 2.2727 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9914 | 97.4553 | 98.5335 | 44.4822 | 10800 | 282 | 11758 | 175 | 165 | 94.2857 | |
| jlack-gatk | SNP | tv | map_l250_m2_e1 | het | 89.2982 | 97.4555 | 82.4010 | 94.1598 | 1915 | 50 | 1915 | 409 | 18 | 4.4010 | |
| jli-custom | SNP | * | map_l150_m0_e0 | het | 98.2666 | 97.4559 | 99.0908 | 76.5432 | 7738 | 202 | 7738 | 71 | 22 | 30.9859 | |
| jlack-gatk | SNP | * | map_l150_m0_e0 | homalt | 98.5532 | 97.4566 | 99.6748 | 74.6529 | 3985 | 104 | 3985 | 13 | 10 | 76.9231 | |
| gduggal-bwaplat | SNP | tv | * | * | 98.5599 | 97.4574 | 99.6876 | 31.4101 | 945035 | 24655 | 945254 | 2962 | 440 | 14.8548 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5718 | 97.4576 | 99.7118 | 70.3672 | 345 | 9 | 346 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5758 | 97.4576 | 99.7199 | 68.4629 | 345 | 9 | 356 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | SNP | ti | map_l125_m2_e0 | * | 96.0478 | 97.4585 | 94.6773 | 79.7239 | 29489 | 769 | 29225 | 1643 | 116 | 7.0603 | |
| gduggal-bwavard | SNP | ti | map_l250_m2_e1 | * | 91.4742 | 97.4586 | 86.1821 | 92.2577 | 4947 | 129 | 4921 | 789 | 28 | 3.5488 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6735 | 97.4593 | 99.9183 | 53.0977 | 11009 | 287 | 11006 | 9 | 4 | 44.4444 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3739 | 97.4595 | 99.3056 | 60.7094 | 5179 | 135 | 5148 | 36 | 21 | 58.3333 | |
| jlack-gatk | SNP | ti | map_l250_m2_e1 | homalt | 98.6012 | 97.4605 | 99.7689 | 86.8645 | 1727 | 45 | 1727 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | INDEL | D1_5 | segdup | * | 97.3404 | 97.4615 | 97.2197 | 94.7311 | 1075 | 28 | 1084 | 31 | 5 | 16.1290 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9638 | 97.4619 | 98.4709 | 54.8834 | 31180 | 812 | 31104 | 483 | 468 | 96.8944 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m0_e0 | het | 84.5932 | 97.4619 | 74.7264 | 88.6901 | 576 | 15 | 751 | 254 | 66 | 25.9843 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | homalt | 98.2022 | 97.4623 | 98.9533 | 82.2165 | 1229 | 32 | 1229 | 13 | 9 | 69.2308 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | * | 97.0354 | 97.4628 | 96.6116 | 88.3585 | 1114 | 29 | 1112 | 39 | 5 | 12.8205 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1487 | 97.4632 | 98.8439 | 76.5004 | 1921 | 50 | 1881 | 22 | 11 | 50.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1487 | 97.4632 | 98.8439 | 76.5004 | 1921 | 50 | 1881 | 22 | 11 | 50.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.9964 | 97.4638 | 98.5348 | 91.1104 | 269 | 7 | 269 | 4 | 2 | 50.0000 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6407 | 97.4638 | 97.8182 | 91.2809 | 269 | 7 | 269 | 6 | 4 | 66.6667 | |
| cchapple-custom | SNP | ti | map_l100_m2_e1 | homalt | 98.7103 | 97.4640 | 99.9889 | 57.8502 | 18025 | 469 | 18020 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6538 | 97.4644 | 97.8440 | 54.1303 | 10801 | 281 | 10801 | 238 | 235 | 98.7395 | |
| gduggal-bwavard | SNP | * | segdup | het | 98.1974 | 97.4649 | 98.9410 | 94.6418 | 16878 | 439 | 16724 | 179 | 23 | 12.8492 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.5254 | 97.4649 | 95.6039 | 64.9385 | 2153 | 56 | 2153 | 99 | 92 | 92.9293 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | het | 95.8604 | 97.4661 | 94.3068 | 70.6611 | 7039 | 183 | 7040 | 425 | 163 | 38.3529 | |
| gduggal-snapvard | SNP | tv | segdup | homalt | 98.3768 | 97.4676 | 99.3031 | 90.1749 | 3156 | 82 | 3135 | 22 | 21 | 95.4545 | |
| gduggal-bwavard | SNP | tv | segdup | homalt | 98.3926 | 97.4676 | 99.3354 | 90.2442 | 3156 | 82 | 3139 | 21 | 19 | 90.4762 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6109 | 97.4679 | 99.7809 | 46.9392 | 2733 | 71 | 2733 | 6 | 6 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 97.8885 | 97.4684 | 98.3122 | 25.4717 | 231 | 6 | 233 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.7179 | 97.4684 | 100.0000 | 72.7032 | 308 | 8 | 309 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2886 | 97.4684 | 99.1228 | 83.5498 | 308 | 8 | 339 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5026 | 97.4692 | 99.5582 | 62.4506 | 1502 | 39 | 4732 | 21 | 16 | 76.1905 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.0264 | 97.4704 | 81.9288 | 85.3506 | 1233 | 32 | 943 | 208 | 28 | 13.4615 | |
| gduggal-bwavard | SNP | ti | map_l125_m1_e0 | * | 95.9902 | 97.4706 | 94.5540 | 78.3647 | 28593 | 742 | 28335 | 1632 | 115 | 7.0466 | |