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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2651-2700 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4308 | 99.2074 | 99.6552 | 61.9169 | 28036 | 224 | 28038 | 97 | 74 | 76.2887 | |
| eyeh-varpipe | SNP | * | segdup | * | 98.2314 | 99.8753 | 96.6407 | 90.4939 | 28032 | 35 | 27387 | 952 | 22 | 2.3109 | |
| gduggal-bwafb | SNP | * | map_l125_m1_e0 | het | 98.4352 | 98.7039 | 98.1679 | 74.4388 | 28024 | 368 | 28024 | 523 | 121 | 23.1358 | |
| egarrison-hhga | SNP | * | map_l125_m1_e0 | het | 99.2263 | 98.7039 | 99.7544 | 69.9636 | 28024 | 368 | 28024 | 69 | 28 | 40.5797 | |
| bgallagher-sentieon | SNP | * | segdup | * | 99.5028 | 99.8432 | 99.1647 | 90.1877 | 28023 | 44 | 28017 | 236 | 12 | 5.0848 | |
| jli-custom | SNP | * | segdup | * | 99.5966 | 99.8397 | 99.3547 | 89.2512 | 28022 | 45 | 28022 | 182 | 12 | 6.5934 | |
| dgrover-gatk | SNP | * | segdup | * | 99.6727 | 99.8397 | 99.5063 | 90.5121 | 28022 | 45 | 28016 | 139 | 12 | 8.6331 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | * | 93.7345 | 93.5147 | 93.9554 | 62.6967 | 28017 | 1943 | 27901 | 1795 | 1783 | 99.3315 | |
| ckim-dragen | SNP | * | segdup | * | 98.4991 | 99.8219 | 97.2109 | 92.1838 | 28017 | 50 | 28022 | 804 | 14 | 1.7413 | |
| cchapple-custom | SNP | * | segdup | * | 99.5856 | 99.8219 | 99.3504 | 91.8828 | 28017 | 50 | 27988 | 183 | 25 | 13.6612 | |
| hfeng-pmm3 | SNP | * | segdup | * | 99.7170 | 99.8183 | 99.6159 | 89.5042 | 28016 | 51 | 28010 | 108 | 8 | 7.4074 | |
| hfeng-pmm2 | SNP | * | segdup | * | 99.6762 | 99.8147 | 99.5380 | 90.2632 | 28015 | 52 | 28009 | 130 | 13 | 10.0000 | |
| jlack-gatk | SNP | * | segdup | * | 98.2374 | 99.8040 | 96.7192 | 93.4608 | 28012 | 55 | 28006 | 950 | 16 | 1.6842 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4435 | 99.1224 | 99.7666 | 66.9356 | 28012 | 248 | 28207 | 66 | 17 | 25.7576 | |
| hfeng-pmm1 | SNP | * | segdup | * | 99.7400 | 99.7934 | 99.6867 | 89.3409 | 28009 | 58 | 28003 | 88 | 11 | 12.5000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9022 | 99.1118 | 98.6934 | 54.7879 | 28009 | 251 | 51137 | 677 | 94 | 13.8848 | |
| raldana-dualsentieon | SNP | * | segdup | * | 99.5928 | 99.7934 | 99.3931 | 89.8391 | 28009 | 58 | 28003 | 171 | 10 | 5.8480 | |
| anovak-vg | SNP | ti | map_l100_m2_e1 | het | 80.9356 | 90.4328 | 73.2435 | 73.3025 | 27998 | 2962 | 27782 | 10149 | 2220 | 21.8741 | |
| rpoplin-dv42 | SNP | * | segdup | * | 99.7488 | 99.7506 | 99.7470 | 89.9398 | 27997 | 70 | 27991 | 71 | 31 | 43.6620 | |
| jpowers-varprowl | SNP | tv | map_siren | het | 97.6371 | 97.8538 | 97.4214 | 66.9739 | 27995 | 614 | 27995 | 741 | 114 | 15.3846 | |
| ckim-dragen | INDEL | * | HG002compoundhet | * | 93.6532 | 93.4379 | 93.8696 | 62.4863 | 27994 | 1966 | 27868 | 1820 | 1806 | 99.2308 | |
| egarrison-hhga | SNP | * | segdup | * | 99.6030 | 99.6793 | 99.5269 | 89.4388 | 27977 | 90 | 27977 | 133 | 40 | 30.0752 | |
| ltrigg-rtg2 | SNP | * | segdup | * | 99.1371 | 99.6722 | 98.6078 | 87.3153 | 27975 | 92 | 27977 | 395 | 53 | 13.4177 | |
| gduggal-bwavard | SNP | tv | map_siren | het | 95.7305 | 97.7804 | 93.7647 | 72.5806 | 27974 | 635 | 27865 | 1853 | 145 | 7.8252 | |
| ghariani-varprowl | SNP | * | segdup | * | 97.8779 | 99.6437 | 96.1737 | 92.2561 | 27967 | 100 | 27975 | 1113 | 70 | 6.2893 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e0 | * | 94.3195 | 92.4218 | 96.2968 | 81.1125 | 27965 | 2293 | 27980 | 1076 | 588 | 54.6468 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 91.9958 | 97.3948 | 87.1640 | 83.7213 | 27964 | 748 | 28079 | 4135 | 89 | 2.1524 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 91.9958 | 97.3948 | 87.1640 | 83.7213 | 27964 | 748 | 28079 | 4135 | 89 | 2.1524 | |
| ltrigg-rtg1 | SNP | * | segdup | * | 99.0787 | 99.6188 | 98.5445 | 88.0967 | 27960 | 107 | 27963 | 413 | 51 | 12.3487 | |
| ndellapenna-hhga | SNP | * | segdup | * | 99.5371 | 99.5903 | 99.4839 | 89.2221 | 27952 | 115 | 27952 | 145 | 51 | 35.1724 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5109 | 97.3461 | 99.7039 | 72.1148 | 27950 | 762 | 27950 | 83 | 24 | 28.9157 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5109 | 97.3461 | 99.7039 | 72.1148 | 27950 | 762 | 27950 | 83 | 24 | 28.9157 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2808 | 98.8889 | 99.6759 | 57.1851 | 27946 | 314 | 27984 | 91 | 76 | 83.5165 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | * | 93.4362 | 93.2377 | 93.6356 | 65.8907 | 27934 | 2026 | 27836 | 1892 | 1575 | 83.2452 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.9422 | 91.6371 | 84.5336 | 63.1509 | 27931 | 2549 | 27596 | 5049 | 4851 | 96.0784 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.9422 | 91.6371 | 84.5336 | 63.1509 | 27931 | 2549 | 27596 | 5049 | 4851 | 96.0784 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7144 | 99.8963 | 99.5331 | 54.5778 | 27930 | 29 | 27929 | 131 | 10 | 7.6336 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7696 | 99.8855 | 99.6539 | 55.1919 | 27927 | 32 | 27926 | 97 | 8 | 8.2474 | |
| gduggal-snapfb | SNP | * | segdup | * | 98.9601 | 99.4941 | 98.4319 | 91.5712 | 27925 | 142 | 27933 | 445 | 34 | 7.6405 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7232 | 99.8605 | 99.5863 | 54.2148 | 27920 | 39 | 27921 | 116 | 9 | 7.7586 | |
| gduggal-bwafb | SNP | * | segdup | * | 98.9280 | 99.4656 | 98.3963 | 91.8876 | 27917 | 150 | 27917 | 455 | 30 | 6.5934 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8658 | 99.8462 | 99.8855 | 53.8968 | 27916 | 43 | 27913 | 32 | 19 | 59.3750 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7964 | 99.8426 | 99.7503 | 54.7629 | 27915 | 44 | 27963 | 70 | 23 | 32.8571 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.4953 | 90.7025 | 92.3021 | 74.5517 | 27901 | 2860 | 27890 | 2326 | 2006 | 86.2425 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4351 | 99.7890 | 99.0837 | 56.5880 | 27900 | 59 | 27899 | 258 | 21 | 8.1395 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.6801 | 99.7532 | 99.6071 | 56.0538 | 27890 | 69 | 27889 | 110 | 11 | 10.0000 | |
| ckim-gatk | SNP | * | segdup | * | 98.8880 | 99.3409 | 98.4392 | 93.5811 | 27882 | 185 | 27876 | 442 | 14 | 3.1674 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0020 | 98.6553 | 99.3511 | 53.3614 | 27880 | 380 | 59096 | 386 | 365 | 94.5596 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7157 | 99.7174 | 99.7139 | 56.2929 | 27880 | 79 | 27879 | 80 | 10 | 12.5000 | |