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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43751-43800 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l150_m2_e1 | * | 99.0935 | 98.8437 | 99.3446 | 73.0880 | 11369 | 133 | 11368 | 75 | 23 | 30.6667 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8272 | 98.5395 | 99.1166 | 73.0877 | 63490 | 941 | 63503 | 566 | 450 | 79.5053 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 36.6202 | 25.3766 | 65.7534 | 73.0876 | 219 | 644 | 192 | 100 | 2 | 2.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 76.4099 | 73.8404 | 79.1646 | 73.0862 | 1592 | 564 | 1592 | 419 | 404 | 96.4200 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3529 | 98.9842 | 99.7244 | 73.0843 | 5067 | 52 | 5065 | 14 | 7 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.1283 | 88.7640 | 95.7576 | 73.0832 | 158 | 20 | 158 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | hetalt | 91.0057 | 84.5844 | 98.4821 | 73.0807 | 9454 | 1723 | 4282 | 66 | 66 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | map_l150_m0_e0 | homalt | 99.6608 | 99.5482 | 99.7736 | 73.0800 | 1322 | 6 | 1322 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7852 | 99.3209 | 96.2963 | 73.0778 | 1170 | 8 | 1170 | 45 | 45 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | map_l125_m0_e0 | hetalt | 93.3333 | 87.5000 | 100.0000 | 73.0769 | 7 | 1 | 7 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | map_l125_m2_e0 | het | 50.0000 | 33.3333 | 100.0000 | 73.0769 | 3 | 6 | 7 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | map_l125_m2_e1 | het | 50.0000 | 33.3333 | 100.0000 | 73.0769 | 3 | 6 | 7 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 24.7191 | 18.0328 | 39.2857 | 73.0769 | 22 | 100 | 22 | 34 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.3488 | 93.1818 | 97.6190 | 73.0769 | 41 | 3 | 41 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0291 | 98.0769 | 100.0000 | 73.0769 | 51 | 1 | 49 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I16_PLUS | map_l100_m2_e0 | het | 84.6512 | 77.7778 | 92.8571 | 73.0769 | 14 | 4 | 13 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | map_l100_m2_e1 | het | 84.6512 | 77.7778 | 92.8571 | 73.0769 | 14 | 4 | 13 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.2858 | 94.6860 | 97.9405 | 73.0746 | 392 | 22 | 428 | 9 | 6 | 66.6667 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e1 | het | 96.4982 | 97.3699 | 95.6419 | 73.0724 | 18585 | 502 | 18588 | 847 | 395 | 46.6352 | |
| jpowers-varprowl | SNP | ti | map_l100_m0_e0 | * | 97.4083 | 96.6745 | 98.1533 | 73.0718 | 21047 | 724 | 21048 | 396 | 147 | 37.1212 | |
| cchapple-custom | SNP | ti | map_l100_m2_e1 | het | 97.1612 | 97.8036 | 96.5271 | 73.0715 | 30280 | 680 | 30296 | 1090 | 274 | 25.1376 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | homalt | 84.5342 | 73.7055 | 99.0926 | 73.0694 | 1637 | 584 | 1638 | 15 | 12 | 80.0000 | |
| eyeh-varpipe | SNP | ti | map_l150_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 73.0679 | 15 | 0 | 115 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 73.1048 | 71.1289 | 75.1936 | 73.0650 | 2577 | 1046 | 2622 | 865 | 237 | 27.3988 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 47.0588 | 31.0680 | 96.9697 | 73.0612 | 64 | 142 | 64 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 78.0360 | 99.3263 | 64.2617 | 73.0595 | 1327 | 9 | 1336 | 743 | 6 | 0.8075 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0441 | 98.5197 | 99.5742 | 73.0561 | 32744 | 492 | 32737 | 140 | 116 | 82.8571 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | * | 99.0817 | 98.8287 | 99.3360 | 73.0560 | 11222 | 133 | 11221 | 75 | 23 | 30.6667 | |
| cchapple-custom | SNP | ti | map_l100_m2_e0 | het | 97.1509 | 97.7892 | 96.5210 | 73.0558 | 29945 | 677 | 29963 | 1080 | 273 | 25.2778 | |
| jli-custom | SNP | ti | map_l150_m1_e0 | het | 98.8959 | 98.4802 | 99.3151 | 73.0550 | 12182 | 188 | 12180 | 84 | 29 | 34.5238 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m1_e0 | homalt | 94.6381 | 90.5405 | 99.1241 | 73.0527 | 469 | 49 | 679 | 6 | 3 | 50.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1341 | 96.7259 | 99.5838 | 73.0521 | 15067 | 510 | 15075 | 63 | 45 | 71.4286 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.2649 | 81.1856 | 94.3284 | 73.0491 | 315 | 73 | 316 | 19 | 13 | 68.4211 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9665 | 94.7838 | 95.1498 | 73.0488 | 2017 | 111 | 2001 | 102 | 87 | 85.2941 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 73.0483 | 0 | 0 | 0 | 145 | 0 | 0.0000 | ||
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8413 | 98.1645 | 99.5274 | 73.0408 | 47385 | 886 | 47174 | 224 | 154 | 68.7500 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.6450 | 99.3179 | 97.9812 | 73.0406 | 728 | 5 | 728 | 15 | 10 | 66.6667 | |
| eyeh-varpipe | SNP | * | map_l125_m0_e0 | homalt | 99.7810 | 99.7318 | 99.8302 | 73.0404 | 6694 | 18 | 6469 | 11 | 5 | 45.4545 | |
| ghariani-varprowl | INDEL | * | HG002compoundhet | * | 14.6445 | 14.5761 | 14.7135 | 73.0382 | 4367 | 25593 | 4334 | 25122 | 24561 | 97.7669 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.2695 | 94.2516 | 72.9904 | 73.0327 | 869 | 53 | 908 | 336 | 30 | 8.9286 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2070 | 100.0000 | 98.4266 | 73.0316 | 564 | 0 | 563 | 9 | 9 | 100.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.2113 | 98.7743 | 97.6546 | 73.0305 | 1370 | 17 | 1374 | 33 | 1 | 3.0303 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.0812 | 94.2669 | 93.8962 | 73.0279 | 1858 | 113 | 1846 | 120 | 112 | 93.3333 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.0812 | 94.2669 | 93.8962 | 73.0279 | 1858 | 113 | 1846 | 120 | 112 | 93.3333 | |
| gduggal-snapvard | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 95.2328 | 73.0263 | 0 | 0 | 859 | 43 | 29 | 67.4419 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.7143 | 76.0000 | 98.2759 | 73.0233 | 57 | 18 | 57 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6889 | 99.4208 | 99.9584 | 73.0221 | 2403 | 14 | 2403 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | tv | map_l150_m0_e0 | homalt | 99.5851 | 99.3976 | 99.7732 | 73.0220 | 1320 | 8 | 1320 | 3 | 3 | 100.0000 | |