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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77501-77550 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | * | map_l150_m1_e0 | homalt | 80.0720 | 67.1516 | 99.1488 | 70.4941 | 7570 | 3703 | 7455 | 64 | 64 | 100.0000 | |
| ckim-isaac | SNP | * | map_l125_m0_e0 | het | 74.0171 | 58.8677 | 99.6658 | 78.7645 | 7455 | 5209 | 7455 | 25 | 3 | 12.0000 | |
| gduggal-bwavard | SNP | ti | map_l100_m0_e0 | homalt | 98.3810 | 96.9900 | 99.8126 | 63.0879 | 7540 | 234 | 7457 | 14 | 11 | 78.5714 | |
| ltrigg-rtg2 | SNP | * | map_l250_m2_e0 | * | 97.1607 | 94.6100 | 99.8528 | 80.6416 | 7460 | 425 | 7460 | 11 | 4 | 36.3636 | |
| ltrigg-rtg2 | SNP | * | map_l150_m0_e0 | het | 96.8156 | 94.0050 | 99.7994 | 59.7632 | 7464 | 476 | 7461 | 15 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.9070 | 76.3413 | 83.8220 | 85.1082 | 7399 | 2293 | 7461 | 1440 | 187 | 12.9861 | |
| ckim-isaac | INDEL | D6_15 | HG002compoundhet | * | 87.3304 | 83.8888 | 91.0664 | 22.5432 | 7576 | 1455 | 7472 | 733 | 687 | 93.7244 | |
| ckim-isaac | SNP | ti | map_l150_m1_e0 | het | 75.2265 | 60.4123 | 99.6666 | 78.7514 | 7473 | 4897 | 7473 | 25 | 2 | 8.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 91.0906 | 96.0483 | 86.6196 | 46.4616 | 2625 | 108 | 7477 | 1155 | 540 | 46.7532 | |
| eyeh-varpipe | SNP | * | HG002compoundhet | hetalt | 99.9219 | 99.8840 | 99.9599 | 21.9998 | 861 | 1 | 7478 | 3 | 2 | 66.6667 | |
| cchapple-custom | SNP | ti | map_l100_m0_e0 | homalt | 98.0662 | 96.2182 | 99.9866 | 56.4787 | 7480 | 294 | 7479 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e0 | homalt | 99.0272 | 98.2405 | 99.8266 | 73.7644 | 7482 | 134 | 7482 | 13 | 10 | 76.9231 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | het | 91.6658 | 90.4877 | 92.8749 | 86.7400 | 7477 | 786 | 7482 | 574 | 330 | 57.4913 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e0 | * | 95.0584 | 94.9017 | 95.2157 | 91.6500 | 7483 | 402 | 7483 | 376 | 93 | 24.7340 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e0 | homalt | 99.0406 | 98.2668 | 99.8266 | 75.5854 | 7484 | 132 | 7484 | 13 | 10 | 76.9231 | |
| gduggal-snapfb | SNP | ti | segdup | homalt | 99.6936 | 99.7335 | 99.6538 | 89.7294 | 7485 | 20 | 7484 | 26 | 9 | 34.6154 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.0801 | 98.2931 | 99.8799 | 71.3088 | 7486 | 130 | 7486 | 9 | 7 | 77.7778 | |
| cchapple-custom | SNP | ti | segdup | homalt | 99.8600 | 99.8668 | 99.8533 | 87.0523 | 7495 | 10 | 7487 | 11 | 11 | 100.0000 | |
| gduggal-bwafb | SNP | ti | segdup | homalt | 99.8134 | 99.7602 | 99.8666 | 88.7165 | 7487 | 18 | 7487 | 10 | 10 | 100.0000 | |
| astatham-gatk | SNP | ti | segdup | homalt | 99.8666 | 99.7868 | 99.9466 | 87.4281 | 7489 | 16 | 7489 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5568 | 97.9679 | 99.1528 | 76.0152 | 5978 | 124 | 7490 | 64 | 52 | 81.2500 | |
| jpowers-varprowl | SNP | ti | map_l150_m0_e0 | * | 96.1494 | 95.2932 | 97.0211 | 84.0052 | 7491 | 370 | 7491 | 230 | 86 | 37.3913 | |
| jlack-gatk | SNP | ti | segdup | homalt | 99.8800 | 99.8135 | 99.9466 | 87.6556 | 7491 | 14 | 7491 | 4 | 4 | 100.0000 | |
| qzeng-custom | SNP | * | map_l150_m0_e0 | * | 75.4274 | 62.9239 | 94.1324 | 92.2685 | 7571 | 4461 | 7492 | 467 | 396 | 84.7966 | |
| ckim-dragen | SNP | ti | segdup | homalt | 99.9000 | 99.8401 | 99.9600 | 86.9440 | 7493 | 12 | 7493 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | ti | map_l150_m0_e0 | * | 95.9984 | 95.3950 | 96.6095 | 81.4997 | 7499 | 362 | 7494 | 263 | 77 | 29.2776 | |
| ltrigg-rtg1 | SNP | ti | segdup | homalt | 99.7604 | 99.9334 | 99.5880 | 88.0751 | 7500 | 5 | 7494 | 31 | 31 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | segdup | homalt | 99.9000 | 99.8534 | 99.9467 | 87.4231 | 7494 | 11 | 7494 | 4 | 4 | 100.0000 | |
| dgrover-gatk | SNP | ti | segdup | homalt | 99.9067 | 99.8534 | 99.9600 | 87.5169 | 7494 | 11 | 7494 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | segdup | homalt | 99.9134 | 99.8668 | 99.9600 | 87.2078 | 7495 | 10 | 7495 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | segdup | homalt | 99.7804 | 99.9734 | 99.5881 | 87.6176 | 7503 | 2 | 7496 | 31 | 31 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | segdup | homalt | 99.7406 | 99.8934 | 99.5882 | 88.2312 | 7497 | 8 | 7497 | 31 | 31 | 100.0000 | |
| jli-custom | SNP | ti | segdup | homalt | 99.9200 | 99.8934 | 99.9467 | 87.3710 | 7497 | 8 | 7497 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 86.1055 | 77.1255 | 97.4522 | 79.8031 | 7475 | 2217 | 7497 | 196 | 77 | 39.2857 | |
| rpoplin-dv42 | SNP | ti | segdup | homalt | 99.8469 | 99.9067 | 99.7871 | 88.5156 | 7498 | 7 | 7498 | 16 | 16 | 100.0000 | |
| egarrison-hhga | SNP | ti | segdup | homalt | 99.8003 | 99.9067 | 99.6942 | 88.4424 | 7498 | 7 | 7498 | 23 | 23 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_l150_m2_e1 | homalt | 99.8689 | 99.8310 | 99.9067 | 75.1753 | 7680 | 13 | 7499 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.1173 | 93.0761 | 99.3641 | 35.8818 | 7501 | 558 | 7500 | 48 | 48 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.1173 | 93.0761 | 99.3641 | 35.8818 | 7501 | 558 | 7500 | 48 | 48 | 100.0000 | |
| ghariani-varprowl | SNP | ti | segdup | homalt | 99.5818 | 99.9334 | 99.2326 | 88.7647 | 7500 | 5 | 7500 | 58 | 36 | 62.0690 | |
| hfeng-pmm1 | SNP | ti | segdup | homalt | 99.9467 | 99.9600 | 99.9334 | 88.2045 | 7502 | 3 | 7502 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | segdup | homalt | 99.9201 | 99.9600 | 99.8802 | 88.1936 | 7502 | 3 | 7502 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | segdup | homalt | 99.9600 | 99.9600 | 99.9600 | 88.1690 | 7502 | 3 | 7502 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | SNP | ti | segdup | homalt | 99.6282 | 99.9600 | 99.2985 | 89.1736 | 7502 | 3 | 7502 | 53 | 36 | 67.9245 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.9446 | 92.7410 | 99.3774 | 27.6985 | 7474 | 585 | 7502 | 47 | 46 | 97.8723 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.9446 | 92.7410 | 99.3774 | 27.6985 | 7474 | 585 | 7502 | 47 | 46 | 97.8723 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | het | 94.6235 | 94.6474 | 94.5997 | 86.3683 | 7515 | 425 | 7515 | 429 | 135 | 31.4685 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | het | 85.0213 | 95.7305 | 76.4670 | 87.2666 | 7601 | 339 | 7519 | 2314 | 131 | 5.6612 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 56.1720 | 50.7947 | 62.8225 | 45.1920 | 7510 | 7275 | 7523 | 4452 | 4009 | 90.0494 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8809 | 89.9476 | 98.1740 | 49.0700 | 7552 | 844 | 7527 | 140 | 92 | 65.7143 | |