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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72201-72250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1397 | 99.2867 | 95.0836 | 54.6384 | 2784 | 20 | 2785 | 144 | 133 | 92.3611 | |
| ckim-vqsr | SNP | * | map_l250_m2_e0 | het | 69.2853 | 53.6581 | 97.7552 | 97.1324 | 2787 | 2407 | 2787 | 64 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8127 | 99.4294 | 98.2036 | 48.6526 | 2788 | 16 | 2788 | 51 | 50 | 98.0392 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 72.4338 | 76.9090 | 68.4508 | 62.7083 | 2518 | 756 | 2788 | 1285 | 845 | 65.7588 | |
| ciseli-custom | SNP | tv | map_l125_m0_e0 | het | 70.2747 | 63.3947 | 78.8298 | 84.9536 | 2790 | 1611 | 2789 | 749 | 26 | 3.4713 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.5313 | 97.5124 | 99.5716 | 47.3892 | 588 | 15 | 2789 | 12 | 10 | 83.3333 | |
| cchapple-custom | SNP | tv | map_l250_m2_e1 | * | 95.6819 | 95.8162 | 95.5479 | 90.3656 | 2794 | 122 | 2790 | 130 | 24 | 18.4615 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 58.2603 | 63.0693 | 54.1327 | 69.0970 | 2548 | 1492 | 2790 | 2364 | 1096 | 46.3621 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 84.4268 | 73.3771 | 99.3944 | 39.7122 | 2792 | 1013 | 2790 | 17 | 15 | 88.2353 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 70.1659 | 88.4506 | 58.1458 | 66.8417 | 2175 | 284 | 2791 | 2009 | 225 | 11.1996 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | het | 97.9824 | 98.2413 | 97.7249 | 78.7694 | 2793 | 50 | 2792 | 65 | 38 | 58.4615 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 63.4351 | 46.7851 | 98.4838 | 42.8226 | 3187 | 3625 | 2793 | 43 | 38 | 88.3721 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | het | 89.8651 | 98.2765 | 82.7801 | 89.5464 | 2794 | 49 | 2793 | 581 | 34 | 5.8520 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.6063 | 94.2548 | 99.0780 | 47.3389 | 2789 | 170 | 2794 | 26 | 6 | 23.0769 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | * | 55.8350 | 49.5825 | 63.8921 | 47.3893 | 2375 | 2415 | 2794 | 1579 | 1240 | 78.5307 | |
| gduggal-bwavard | SNP | tv | map_l250_m2_e0 | * | 88.8754 | 97.3629 | 81.7490 | 91.8702 | 2806 | 76 | 2795 | 624 | 17 | 2.7244 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | * | 72.2208 | 72.4441 | 71.9990 | 84.9008 | 2721 | 1035 | 2795 | 1087 | 655 | 60.2576 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | homalt | 63.4373 | 46.4683 | 99.9285 | 67.7501 | 2796 | 3221 | 2796 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 84.2056 | 79.3893 | 89.6441 | 65.5967 | 2808 | 729 | 2796 | 323 | 253 | 78.3282 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6069 | 99.7147 | 97.5235 | 50.6371 | 2796 | 8 | 2796 | 71 | 71 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l100_m0_e0 | homalt | 83.9304 | 72.9329 | 98.8335 | 64.8615 | 2805 | 1041 | 2796 | 33 | 33 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | het | 93.9083 | 99.6483 | 88.7937 | 84.1222 | 2833 | 10 | 2797 | 353 | 7 | 1.9830 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e0 | * | 97.4404 | 97.0854 | 97.7980 | 89.7481 | 2798 | 84 | 2798 | 63 | 14 | 22.2222 | |
| hfeng-pmm1 | SNP | tv | map_l150_m0_e0 | het | 98.7997 | 98.4523 | 99.1495 | 80.8249 | 2799 | 44 | 2798 | 24 | 3 | 12.5000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.5933 | 99.7860 | 95.4949 | 53.0674 | 2798 | 6 | 2798 | 132 | 131 | 99.2424 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.5750 | 99.7860 | 89.8811 | 59.7231 | 2798 | 6 | 2798 | 315 | 314 | 99.6825 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.6444 | 99.7860 | 95.5928 | 54.4932 | 2798 | 6 | 2798 | 129 | 127 | 98.4496 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7824 | 99.8573 | 95.7920 | 54.8083 | 2800 | 4 | 2800 | 123 | 122 | 99.1870 | |
| gduggal-snapplat | SNP | ti | map_l250_m2_e0 | het | 88.7434 | 85.9865 | 91.6830 | 94.7245 | 2798 | 456 | 2800 | 254 | 132 | 51.9685 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7654 | 99.8573 | 95.7592 | 54.7998 | 2800 | 4 | 2800 | 124 | 123 | 99.1935 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 84.0471 | 96.0902 | 74.6866 | 62.8554 | 1278 | 52 | 2800 | 949 | 275 | 28.9779 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7832 | 99.8930 | 95.7607 | 54.8681 | 2801 | 3 | 2801 | 124 | 124 | 100.0000 | |
| jli-custom | SNP | tv | map_l250_m2_e0 | * | 98.1086 | 97.1895 | 99.0453 | 86.0929 | 2801 | 81 | 2801 | 27 | 12 | 44.4444 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.9036 | 99.8930 | 94.0880 | 54.4523 | 2801 | 3 | 2801 | 176 | 175 | 99.4318 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7832 | 99.8930 | 95.7607 | 54.7214 | 2801 | 3 | 2801 | 124 | 124 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | map_l150_m0_e0 | het | 98.2477 | 98.6282 | 97.8701 | 83.2230 | 2804 | 39 | 2803 | 61 | 3 | 4.9180 | |
| ghariani-varprowl | INDEL | I1_5 | map_siren | * | 92.4494 | 93.3444 | 91.5714 | 83.4764 | 2805 | 200 | 2803 | 258 | 121 | 46.8992 | |
| ghariani-varprowl | SNP | tv | map_l150_m0_e0 | het | 94.6019 | 98.6282 | 90.8914 | 86.7158 | 2804 | 39 | 2804 | 281 | 52 | 18.5053 | |
| hfeng-pmm3 | SNP | tv | map_l150_m0_e0 | het | 98.8723 | 98.6986 | 99.0466 | 80.7883 | 2806 | 37 | 2805 | 27 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | het | 98.2667 | 98.7337 | 97.8041 | 84.8097 | 2807 | 36 | 2806 | 63 | 8 | 12.6984 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e0 | * | 94.4940 | 97.3629 | 91.7893 | 91.5975 | 2806 | 76 | 2806 | 251 | 35 | 13.9442 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 80.7906 | 68.5669 | 98.3181 | 40.6653 | 2622 | 1202 | 2806 | 48 | 41 | 85.4167 | |
| ckim-dragen | SNP | tv | map_l250_m2_e0 | * | 97.2121 | 97.3976 | 97.0273 | 89.9044 | 2807 | 75 | 2807 | 86 | 12 | 13.9535 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e0 | * | 71.2437 | 56.0503 | 97.7368 | 96.1742 | 2807 | 2201 | 2807 | 65 | 8 | 12.3077 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.5762 | 95.2963 | 88.1356 | 47.4691 | 3120 | 154 | 2808 | 378 | 341 | 90.2116 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.1153 | 94.1966 | 98.1139 | 51.3592 | 2808 | 173 | 2809 | 54 | 50 | 92.5926 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | het | 92.4085 | 90.4808 | 94.4202 | 55.5173 | 2823 | 297 | 2809 | 166 | 152 | 91.5663 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2099 | 98.5704 | 99.8579 | 70.2128 | 2620 | 38 | 2810 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 80.9979 | 69.0681 | 97.9094 | 73.8330 | 2809 | 1258 | 2810 | 60 | 52 | 86.6667 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.4711 | 89.8077 | 99.6454 | 42.6596 | 2802 | 318 | 2810 | 10 | 9 | 90.0000 | |