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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8651-8700 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | * | map_l150_m1_e0 | * | 38.6014 | 23.9309 | 99.7548 | 94.4087 | 7325 | 23284 | 7322 | 18 | 5 | 27.7778 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | homalt | 99.4701 | 99.0127 | 99.9317 | 30.6381 | 7321 | 73 | 7321 | 5 | 5 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7071 | 99.5105 | 99.9045 | 32.0412 | 7319 | 36 | 7321 | 7 | 2 | 28.5714 | |
| jmaeng-gatk | SNP | tv | map_l150_m1_e0 | * | 79.2356 | 67.0913 | 96.7482 | 88.9242 | 7321 | 3591 | 7319 | 246 | 7 | 2.8455 | |
| jlack-gatk | INDEL | * | map_siren | * | 96.8350 | 98.5155 | 95.2108 | 84.4494 | 7300 | 110 | 7316 | 368 | 36 | 9.7826 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | homalt | 97.3605 | 95.2148 | 99.6052 | 63.3538 | 7402 | 372 | 7316 | 29 | 23 | 79.3103 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6457 | 99.4290 | 99.8635 | 32.0123 | 7313 | 42 | 7315 | 10 | 4 | 40.0000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | homalt | 99.7953 | 99.8089 | 99.7817 | 70.9972 | 7313 | 14 | 7313 | 16 | 7 | 43.7500 | |
| hfeng-pmm3 | SNP | ti | map_l150_m1_e0 | homalt | 99.7816 | 99.7680 | 99.7952 | 70.9268 | 7310 | 17 | 7310 | 15 | 6 | 40.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7001 | 99.4290 | 99.9726 | 32.1925 | 7313 | 42 | 7309 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
| jli-custom | INDEL | * | map_siren | * | 98.8895 | 98.5020 | 99.2800 | 80.4395 | 7299 | 111 | 7308 | 53 | 17 | 32.0755 | |
| jmaeng-gatk | INDEL | * | map_siren | * | 97.8625 | 98.4211 | 97.3103 | 85.3526 | 7293 | 117 | 7308 | 202 | 30 | 14.8515 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 92.5582 | 86.9571 | 98.9306 | 27.1355 | 7107 | 1066 | 7308 | 79 | 75 | 94.9367 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6524 | 99.3882 | 99.9179 | 31.7465 | 7310 | 45 | 7306 | 6 | 1 | 16.6667 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6319 | 99.3746 | 99.8906 | 32.4559 | 7309 | 46 | 7305 | 8 | 1 | 12.5000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1967 | 97.8663 | 98.5292 | 39.4229 | 7293 | 159 | 7302 | 109 | 85 | 77.9817 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5910 | 99.3338 | 99.8496 | 31.5262 | 7306 | 49 | 7302 | 11 | 3 | 27.2727 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5978 | 99.3202 | 99.8769 | 36.6057 | 7305 | 50 | 7301 | 9 | 4 | 44.4444 | |
| egarrison-hhga | SNP | ti | map_l150_m1_e0 | homalt | 99.7745 | 99.6451 | 99.9042 | 70.8007 | 7301 | 26 | 7301 | 7 | 7 | 100.0000 | |
| ckim-vqsr | SNP | ti | segdup | homalt | 98.5954 | 97.2685 | 99.9589 | 88.0169 | 7300 | 205 | 7300 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | SNP | ti | segdup | homalt | 98.7626 | 97.9614 | 99.5771 | 88.2815 | 7352 | 153 | 7300 | 31 | 30 | 96.7742 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | homalt | 77.8127 | 63.7109 | 99.9316 | 75.6597 | 7300 | 4158 | 7300 | 5 | 4 | 80.0000 | |
| ckim-gatk | SNP | tv | map_l150_m1_e0 | * | 79.1583 | 66.8988 | 96.9190 | 88.8068 | 7300 | 3612 | 7298 | 232 | 8 | 3.4483 | |
| bgallagher-sentieon | SNP | tv | map_l150_m2_e1 | het | 98.6417 | 99.3468 | 97.9466 | 79.9186 | 7300 | 48 | 7298 | 153 | 20 | 13.0719 | |
| raldana-dualsentieon | INDEL | * | map_siren | * | 98.6998 | 98.2726 | 99.1307 | 80.1633 | 7282 | 128 | 7298 | 64 | 16 | 25.0000 | |
| hfeng-pmm1 | INDEL | * | map_siren | * | 98.7669 | 98.3131 | 99.2250 | 80.4107 | 7285 | 125 | 7298 | 57 | 12 | 21.0526 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e1 | homalt | 97.2023 | 94.8395 | 99.6858 | 79.8530 | 7296 | 397 | 7297 | 23 | 14 | 60.8696 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m1_e0 | homalt | 99.6993 | 99.5496 | 99.8494 | 70.3647 | 7294 | 33 | 7295 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7867 | 98.9531 | 98.6209 | 43.1645 | 7278 | 77 | 7294 | 102 | 43 | 42.1569 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9033 | 99.2281 | 98.5807 | 59.2778 | 7327 | 57 | 7293 | 105 | 100 | 95.2381 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 50.5167 | 46.3701 | 55.4778 | 71.4813 | 5806 | 6715 | 7292 | 5852 | 1482 | 25.3247 | |
| jli-custom | SNP | ti | map_l150_m1_e0 | homalt | 99.7128 | 99.5087 | 99.9178 | 67.3088 | 7291 | 36 | 7291 | 6 | 6 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.5087 | 99.8767 | 68.0791 | 7291 | 36 | 7291 | 9 | 7 | 77.7778 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8560 | 99.1874 | 98.5268 | 58.9697 | 7324 | 60 | 7290 | 109 | 104 | 95.4128 | |
| qzeng-custom | SNP | tv | map_l100_m2_e1 | homalt | 87.7555 | 78.7143 | 99.1432 | 62.9833 | 7322 | 1980 | 7290 | 63 | 62 | 98.4127 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m1_e0 | homalt | 99.6922 | 99.4677 | 99.9178 | 67.8010 | 7288 | 39 | 7289 | 6 | 6 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 60.1668 | 61.4104 | 58.9725 | 57.4072 | 5164 | 3245 | 7289 | 5071 | 4386 | 86.4918 | |
| raldana-dualsentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.4814 | 99.9041 | 67.2252 | 7289 | 38 | 7289 | 7 | 6 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8289 | 99.1468 | 98.5131 | 59.7388 | 7321 | 63 | 7288 | 110 | 106 | 96.3636 | |
| dgrover-gatk | SNP | tv | map_l150_m2_e1 | het | 98.8473 | 99.2107 | 98.4865 | 81.3098 | 7290 | 58 | 7288 | 112 | 20 | 17.8571 | |
| ndellapenna-hhga | SNP | ti | map_l150_m1_e0 | homalt | 99.6785 | 99.4404 | 99.9177 | 69.6369 | 7286 | 41 | 7286 | 6 | 6 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8947 | 98.7270 | 95.1293 | 53.9091 | 7290 | 94 | 7285 | 373 | 354 | 94.9062 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e1 | het | 99.2305 | 99.1698 | 99.2913 | 76.4144 | 7287 | 61 | 7285 | 52 | 5 | 9.6154 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8419 | 99.1062 | 98.5790 | 59.3072 | 7318 | 66 | 7284 | 105 | 100 | 95.2381 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.7413 | 99.0926 | 98.3925 | 58.6124 | 7317 | 67 | 7284 | 119 | 115 | 96.6387 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.3059 | 89.5985 | 99.5353 | 25.4660 | 7253 | 842 | 7283 | 34 | 30 | 88.2353 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | homalt | 99.4222 | 98.9316 | 99.9177 | 28.6749 | 7315 | 79 | 7282 | 6 | 5 | 83.3333 | |
| mlin-fermikit | SNP | ti | HG002compoundhet | homalt | 93.7665 | 98.4176 | 89.5352 | 35.5677 | 7277 | 117 | 7281 | 851 | 725 | 85.1939 | |
| ckim-isaac | INDEL | D6_15 | * | hetalt | 90.6237 | 83.9246 | 98.4851 | 33.2460 | 6860 | 1314 | 7281 | 112 | 99 | 88.3929 | |