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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62651-62700 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | I16_PLUS | HG002complexvar | het | 60.5561 | 44.2105 | 96.0784 | 72.5561 | 294 | 371 | 294 | 12 | 5 | 41.6667 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | het | 45.1327 | 36.1702 | 60.0000 | 92.0635 | 17 | 30 | 18 | 12 | 6 | 50.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 68.4366 | 54.9763 | 90.6250 | 82.2960 | 116 | 95 | 116 | 12 | 11 | 91.6667 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 63.5071 | 48.5507 | 91.7808 | 97.3961 | 134 | 142 | 134 | 12 | 2 | 16.6667 | |
| gduggal-bwaplat | SNP | * | map_l250_m1_e0 | * | 51.9747 | 35.1703 | 99.5300 | 97.3642 | 2540 | 4682 | 2541 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m1_e0 | het | 55.4141 | 38.4227 | 99.3482 | 97.7302 | 1827 | 2928 | 1829 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e0 | * | 54.0835 | 37.1211 | 99.5918 | 97.3661 | 2927 | 4958 | 2928 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e0 | het | 57.5846 | 40.5275 | 99.4337 | 97.7208 | 2105 | 3089 | 2107 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e1 | * | 54.2324 | 37.2605 | 99.5985 | 97.3745 | 2976 | 5011 | 2977 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e1 | het | 57.7898 | 40.7295 | 99.4439 | 97.7262 | 2144 | 3120 | 2146 | 12 | 3 | 25.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.4671 | 81.5166 | 99.1361 | 72.5927 | 1376 | 312 | 1377 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.0000 | 70.0000 | 94.7984 | 0 | 0 | 28 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 88.4615 | 0 | 0 | 0 | 12 | 8 | 66.6667 | ||
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.2857 | 26.0870 | 50.0000 | 38.4615 | 12 | 34 | 12 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | D16_PLUS | map_l100_m1_e0 | * | 58.6912 | 47.1264 | 77.7778 | 85.7520 | 41 | 46 | 42 | 12 | 12 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | map_l100_m2_e0 | * | 58.4466 | 46.6667 | 78.1818 | 86.7150 | 42 | 48 | 43 | 12 | 12 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 14.2857 | 68.1818 | 0 | 87 | 2 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 0.0000 | 70.0000 | 99.9063 | 0 | 0 | 28 | 12 | 11 | 91.6667 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 74.7331 | 75.0000 | 74.4681 | 58.4071 | 27 | 9 | 35 | 12 | 12 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m1_e0 | het | 79.4144 | 72.8814 | 87.2340 | 74.7312 | 43 | 16 | 82 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e0 | het | 79.0220 | 72.1311 | 87.3684 | 76.1905 | 44 | 17 | 83 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e1 | het | 79.0220 | 72.1311 | 87.3684 | 76.4851 | 44 | 17 | 83 | 12 | 10 | 83.3333 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6806 | 99.6087 | 99.7525 | 66.7490 | 4837 | 19 | 4837 | 12 | 10 | 83.3333 | |
| ckim-vqsr | SNP | tv | map_l250_m0_e0 | * | 54.7664 | 38.3007 | 96.0656 | 98.5419 | 293 | 472 | 293 | 12 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m0_e0 | het | 60.2871 | 44.0559 | 95.4545 | 98.5526 | 252 | 320 | 252 | 12 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.5915 | 99.5935 | 97.6096 | 62.3406 | 490 | 2 | 490 | 12 | 11 | 91.6667 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2366 | 99.7807 | 98.6985 | 70.3346 | 910 | 2 | 910 | 12 | 9 | 75.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | het | 85.2611 | 93.7500 | 78.1818 | 96.1295 | 45 | 3 | 43 | 12 | 4 | 33.3333 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | het | 86.0819 | 94.1176 | 79.3103 | 96.0137 | 48 | 3 | 46 | 12 | 4 | 33.3333 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.3859 | 89.8140 | 99.4483 | 30.8646 | 2125 | 241 | 2163 | 12 | 11 | 91.6667 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.1458 | 71.4848 | 99.3528 | 29.1555 | 1815 | 724 | 1842 | 12 | 9 | 75.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.1654 | 74.5662 | 99.2771 | 27.6058 | 1633 | 557 | 1648 | 12 | 9 | 75.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.5449 | 91.7497 | 99.6677 | 68.0131 | 3592 | 323 | 3599 | 12 | 9 | 75.0000 | |
| ckim-isaac | SNP | ti | map_l250_m2_e0 | het | 69.1244 | 53.0117 | 99.3092 | 92.1654 | 1725 | 1529 | 1725 | 12 | 1 | 8.3333 | |
| ckim-isaac | SNP | ti | map_l250_m2_e1 | het | 69.1304 | 53.0161 | 99.3186 | 92.2279 | 1749 | 1550 | 1749 | 12 | 1 | 8.3333 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.5815 | 94.1667 | 99.1234 | 62.7989 | 1356 | 84 | 1357 | 12 | 7 | 58.3333 | |
| ckim-isaac | SNP | tv | map_l100_m0_e0 | * | 71.0742 | 55.1877 | 99.8043 | 69.9269 | 6117 | 4967 | 6119 | 12 | 3 | 25.0000 | |
| ckim-isaac | SNP | tv | map_l100_m0_e0 | het | 74.7468 | 59.7757 | 99.7229 | 73.2042 | 4317 | 2905 | 4319 | 12 | 3 | 25.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7592 | 99.5922 | 99.9267 | 60.1242 | 16362 | 67 | 16361 | 12 | 1 | 8.3333 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5458 | 99.2722 | 99.8208 | 49.8653 | 6684 | 49 | 6686 | 12 | 7 | 58.3333 | |
| ckim-vqsr | INDEL | D16_PLUS | map_siren | * | 93.8073 | 95.8042 | 91.8919 | 95.1823 | 137 | 6 | 136 | 12 | 2 | 16.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l250_m0_e0 | * | 88.4615 | 100.0000 | 79.3103 | 98.1481 | 46 | 0 | 46 | 12 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l250_m0_e0 | het | 84.6154 | 100.0000 | 73.3333 | 98.2353 | 33 | 0 | 33 | 12 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.3783 | 98.4848 | 96.2963 | 75.6574 | 325 | 5 | 312 | 12 | 6 | 50.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.4009 | 91.5493 | 97.4359 | 75.4588 | 455 | 42 | 456 | 12 | 12 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m0_e0 | * | 97.3193 | 96.8692 | 97.7737 | 89.6605 | 526 | 17 | 527 | 12 | 2 | 16.6667 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m1_e0 | het | 96.5955 | 94.8520 | 98.4043 | 89.8378 | 737 | 40 | 740 | 12 | 1 | 8.3333 | |