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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71801-71850 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2626 | 99.2439 | 99.2814 | 84.2685 | 2625 | 20 | 2625 | 19 | 7 | 36.8421 | |
| jlack-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6471 | 97.7290 | 99.5827 | 86.9731 | 2625 | 61 | 2625 | 11 | 8 | 72.7273 | |
| qzeng-custom | INDEL | I6_15 | HG002complexvar | het | 94.4892 | 95.7962 | 93.2173 | 56.1507 | 2256 | 99 | 2625 | 191 | 60 | 31.4136 | |
| jmaeng-gatk | INDEL | I16_PLUS | * | het | 97.7761 | 97.3878 | 98.1675 | 76.4716 | 2647 | 71 | 2625 | 49 | 8 | 16.3265 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.0766 | 96.6507 | 99.5451 | 88.1460 | 2626 | 91 | 2626 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2817 | 99.2817 | 99.2817 | 83.4450 | 2626 | 19 | 2626 | 19 | 6 | 31.5789 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.1834 | 98.7146 | 88.2392 | 86.6487 | 2611 | 34 | 2626 | 350 | 41 | 11.7143 | |
| ckim-dragen | INDEL | * | map_siren | homalt | 98.9825 | 98.9454 | 99.0196 | 81.6305 | 2627 | 28 | 2626 | 26 | 15 | 57.6923 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.7237 | 93.5806 | 91.8824 | 43.4731 | 2624 | 180 | 2626 | 232 | 212 | 91.3793 | |
| ghariani-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1315 | 96.6152 | 99.6963 | 88.8565 | 2626 | 92 | 2626 | 8 | 4 | 50.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.6423 | 87.1021 | 73.3594 | 90.7618 | 2627 | 389 | 2627 | 954 | 23 | 2.4109 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 46.2642 | 97.2779 | 30.3489 | 80.4847 | 2573 | 72 | 2627 | 6029 | 58 | 0.9620 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.5181 | 97.1512 | 99.9239 | 28.2478 | 2660 | 78 | 2627 | 2 | 1 | 50.0000 | |
| cchapple-custom | SNP | ti | map_l150_m0_e0 | homalt | 97.5139 | 95.1829 | 99.9619 | 70.3118 | 2628 | 133 | 2627 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | map_l250_m2_e0 | het | 67.0153 | 50.5776 | 99.2819 | 92.1809 | 2627 | 2567 | 2627 | 19 | 2 | 10.5263 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2822 | 99.3573 | 99.2072 | 83.9930 | 2628 | 17 | 2628 | 21 | 7 | 33.3333 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0767 | 99.3951 | 98.7603 | 83.0758 | 2629 | 16 | 2629 | 33 | 6 | 18.1818 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1703 | 96.7255 | 99.6588 | 90.0637 | 2629 | 89 | 2629 | 9 | 5 | 55.5556 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.1212 | 96.7368 | 99.5458 | 35.0221 | 2668 | 90 | 2630 | 12 | 9 | 75.0000 | |
| gduggal-snapplat | SNP | tv | func_cds | het | 99.1144 | 98.9838 | 99.2453 | 45.4845 | 2630 | 27 | 2630 | 20 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | * | map_l250_m2_e0 | homalt | 98.7237 | 97.9151 | 99.5458 | 87.7612 | 2630 | 56 | 2630 | 12 | 12 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0022 | 98.7524 | 97.2633 | 81.0644 | 2612 | 33 | 2630 | 74 | 2 | 2.7027 | |
| jpowers-varprowl | SNP | tv | func_cds | het | 98.3558 | 99.0591 | 97.6623 | 39.9644 | 2632 | 25 | 2632 | 63 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | map_siren | homalt | 99.1894 | 99.0584 | 99.3208 | 79.6138 | 2630 | 25 | 2632 | 18 | 11 | 61.1111 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.8646 | 89.3667 | 94.5063 | 68.0289 | 2681 | 319 | 2632 | 153 | 61 | 39.8693 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 63.9710 | 53.3687 | 79.8301 | 38.1774 | 705 | 616 | 2632 | 665 | 660 | 99.2481 | |
| gduggal-bwavard | SNP | ti | map_l150_m0_e0 | homalt | 98.0657 | 96.4868 | 99.6971 | 76.4491 | 2664 | 97 | 2633 | 8 | 6 | 75.0000 | |
| gduggal-bwaplat | SNP | tv | func_cds | het | 99.3960 | 99.0967 | 99.6971 | 49.3090 | 2633 | 24 | 2633 | 8 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.5465 | 99.6219 | 99.4711 | 83.1776 | 2635 | 10 | 2633 | 14 | 8 | 57.1429 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9667 | 98.0640 | 99.8862 | 50.8114 | 2634 | 52 | 2634 | 3 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0783 | 98.8658 | 97.3033 | 81.4881 | 2615 | 30 | 2634 | 73 | 1 | 1.3699 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4336 | 99.0594 | 99.8106 | 68.9594 | 2633 | 25 | 2635 | 5 | 3 | 60.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | * | het | 98.6061 | 97.7557 | 99.4715 | 72.8336 | 2657 | 61 | 2635 | 14 | 3 | 21.4286 | |
| jlack-gatk | INDEL | * | map_siren | homalt | 99.0590 | 99.0207 | 99.0974 | 80.4586 | 2629 | 26 | 2635 | 24 | 14 | 58.3333 | |
| ciseli-custom | SNP | tv | func_cds | het | 92.8964 | 99.2473 | 87.3095 | 32.0576 | 2637 | 20 | 2635 | 383 | 2 | 0.5222 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 84.2619 | 97.2450 | 74.3373 | 66.4617 | 2612 | 74 | 2636 | 910 | 12 | 1.3187 | |
| gduggal-snapvard | INDEL | * | map_l125_m1_e0 | * | 85.8371 | 91.9791 | 80.4640 | 88.3383 | 1938 | 169 | 2636 | 640 | 251 | 39.2188 | |
| jmaeng-gatk | INDEL | * | map_siren | homalt | 99.1343 | 99.0960 | 99.1726 | 81.5411 | 2631 | 24 | 2637 | 22 | 15 | 68.1818 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7925 | 97.6137 | 100.0000 | 42.2217 | 2618 | 64 | 2637 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7925 | 97.6137 | 100.0000 | 42.7983 | 2618 | 64 | 2637 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7006 | 97.6510 | 99.7730 | 41.9121 | 2619 | 63 | 2637 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5100 | 99.3604 | 99.6600 | 70.5987 | 2641 | 17 | 2638 | 9 | 2 | 22.2222 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3594 | 99.1723 | 99.5472 | 71.1298 | 2636 | 22 | 2638 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | homalt | 99.0054 | 98.2130 | 99.8108 | 88.9664 | 2638 | 48 | 2638 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | het | 98.4241 | 97.9397 | 98.9135 | 73.5192 | 2662 | 56 | 2640 | 29 | 4 | 13.7931 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.3642 | 66.6334 | 86.7280 | 50.6405 | 9350 | 4682 | 2640 | 404 | 232 | 57.4257 | |
| cchapple-custom | INDEL | * | segdup | * | 99.1318 | 98.9045 | 99.3602 | 94.4519 | 2528 | 28 | 2640 | 17 | 10 | 58.8235 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.5543 | 98.5633 | 94.6256 | 88.5760 | 2607 | 38 | 2641 | 150 | 21 | 14.0000 | |