PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57151-57200 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | * | map_l250_m2_e0 | het | 93.9252 | 95.7143 | 92.2018 | 96.5943 | 201 | 9 | 201 | 17 | 2 | 11.7647 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2593 | 100.0000 | 98.5294 | 88.1257 | 201 | 0 | 201 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2593 | 100.0000 | 98.5294 | 88.3095 | 201 | 0 | 201 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | * | map_l250_m2_e0 | het | 95.9427 | 95.7143 | 96.1722 | 95.9846 | 201 | 9 | 201 | 8 | 2 | 25.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.0428 | 98.5294 | 97.5610 | 92.5617 | 201 | 3 | 200 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 19.1559 | 90.9502 | 10.7054 | 81.4012 | 201 | 20 | 214 | 1785 | 28 | 1.5686 | |
| gduggal-snapplat | INDEL | * | map_l125_m0_e0 | homalt | 81.8078 | 70.7746 | 96.9163 | 92.3518 | 201 | 83 | 220 | 7 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2593 | 100.0000 | 98.5294 | 87.3449 | 201 | 0 | 201 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l150_m2_e0 | homalt | 99.2481 | 100.0000 | 98.5075 | 88.2181 | 201 | 0 | 198 | 3 | 1 | 33.3333 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.6818 | 35.2014 | 65.0485 | 65.2418 | 201 | 370 | 201 | 108 | 80 | 74.0741 | |
| ciseli-custom | INDEL | D6_15 | map_siren | het | 69.4186 | 71.7857 | 67.2026 | 85.2327 | 201 | 79 | 209 | 102 | 21 | 20.5882 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.2837 | 98.5294 | 98.0392 | 87.7182 | 201 | 3 | 200 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.5161 | 92.6267 | 98.5915 | 44.5312 | 201 | 16 | 210 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 91.9908 | 86.2661 | 98.5294 | 74.4040 | 201 | 32 | 201 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | map_l250_m2_e0 | het | 95.7143 | 95.7143 | 95.7143 | 95.7282 | 201 | 9 | 201 | 9 | 2 | 22.2222 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m1_e0 | homalt | 70.2797 | 61.4679 | 82.0408 | 75.7185 | 201 | 126 | 201 | 44 | 42 | 95.4545 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 92.2217 | 93.0556 | 91.4027 | 66.4134 | 201 | 15 | 202 | 19 | 19 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | map_l250_m2_e1 | het | 95.7346 | 95.7346 | 95.7346 | 95.8193 | 202 | 9 | 202 | 9 | 2 | 22.2222 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l150_m2_e1 | homalt | 99.2605 | 99.0196 | 99.5025 | 85.2747 | 202 | 2 | 200 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5366 | 99.0196 | 98.0583 | 89.4467 | 202 | 2 | 202 | 4 | 1 | 25.0000 | |
| egarrison-hhga | INDEL | * | map_l250_m2_e1 | het | 95.9620 | 95.7346 | 96.1905 | 96.0667 | 202 | 9 | 202 | 8 | 2 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 77.4370 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | het | 95.7346 | 96.1905 | 95.2830 | 96.8183 | 202 | 8 | 202 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 76.7494 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 76.5909 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | het | 49.1777 | 39.7638 | 64.4315 | 91.9559 | 202 | 306 | 221 | 122 | 15 | 12.2951 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | het | 93.9535 | 95.7346 | 92.2374 | 96.6702 | 202 | 9 | 202 | 17 | 2 | 11.7647 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 80.4268 | 75.9398 | 85.4772 | 80.3586 | 202 | 64 | 206 | 35 | 25 | 71.4286 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002compoundhet | het | 84.2722 | 97.1154 | 74.4292 | 84.1189 | 202 | 6 | 163 | 56 | 55 | 98.2143 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 76.5108 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6507 | 98.5366 | 94.8357 | 90.7270 | 202 | 3 | 202 | 11 | 8 | 72.7273 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6507 | 98.5366 | 94.8357 | 90.7270 | 202 | 3 | 202 | 11 | 8 | 72.7273 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.4200 | 93.0876 | 100.0000 | 40.2817 | 202 | 15 | 212 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5366 | 99.0196 | 98.0583 | 88.5237 | 202 | 2 | 202 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | * | map_l250_m2_e0 | het | 87.0690 | 96.1905 | 79.5276 | 97.4716 | 202 | 8 | 202 | 52 | 1 | 1.9231 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.8825 | 98.5366 | 95.2830 | 90.2349 | 202 | 3 | 202 | 10 | 7 | 70.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.8825 | 98.5366 | 95.2830 | 90.2349 | 202 | 3 | 202 | 10 | 7 | 70.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 77.6923 | 63.9241 | 99.0196 | 81.1460 | 202 | 114 | 202 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 60.2985 | 43.5345 | 98.0583 | 86.3666 | 202 | 262 | 202 | 4 | 2 | 50.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | map_siren | * | 79.0667 | 66.2295 | 98.0769 | 90.4236 | 202 | 103 | 204 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 39.9604 | 56.2674 | 30.9816 | 39.7969 | 202 | 157 | 202 | 450 | 389 | 86.4444 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | het | 92.5867 | 97.1154 | 88.4615 | 85.5556 | 202 | 6 | 161 | 21 | 20 | 95.2381 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3494 | 96.6507 | 98.0583 | 77.4370 | 202 | 7 | 202 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | * | func_cds | homalt | 93.7355 | 89.3805 | 98.5366 | 32.5658 | 202 | 24 | 202 | 3 | 1 | 33.3333 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 52.7646 | 70.1389 | 42.2890 | 66.9445 | 202 | 86 | 436 | 595 | 310 | 52.1008 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 16.5303 | 0.0000 | 0.0000 | 202 | 1020 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 79.5890 | 75.9398 | 83.6066 | 81.9793 | 202 | 64 | 204 | 40 | 39 | 97.5000 | |
| jpowers-varprowl | INDEL | * | func_cds | homalt | 94.1725 | 89.3805 | 99.5074 | 31.4189 | 202 | 24 | 202 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.7775 | 99.0196 | 98.5366 | 88.5921 | 202 | 2 | 202 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | het | 84.9309 | 97.1154 | 75.4630 | 84.4268 | 202 | 6 | 163 | 53 | 53 | 100.0000 | |