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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76501-76550 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | * | map_l125_m2_e1 | het | 88.6934 | 81.7679 | 96.9006 | 87.2177 | 24236 | 5404 | 24230 | 775 | 56 | 7.2258 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.4258 | 95.4620 | 97.4092 | 41.9487 | 3492 | 166 | 3459 | 92 | 56 | 60.8696 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | * | 98.0759 | 98.7207 | 97.4394 | 76.5498 | 19137 | 248 | 19141 | 503 | 56 | 11.1332 | |
| cchapple-custom | SNP | tv | map_l125_m0_e0 | * | 95.8633 | 96.5164 | 95.2189 | 78.5014 | 6400 | 231 | 6393 | 321 | 56 | 17.4455 | |
| cchapple-custom | SNP | tv | map_l125_m0_e0 | het | 94.8705 | 96.8189 | 92.9989 | 81.5819 | 4261 | 140 | 4264 | 321 | 56 | 17.4455 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4715 | 99.6836 | 99.2603 | 56.9862 | 55455 | 176 | 55556 | 414 | 57 | 13.7681 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3696 | 99.2268 | 97.5271 | 78.9884 | 28490 | 222 | 28632 | 726 | 57 | 7.8512 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3696 | 99.2268 | 97.5271 | 78.9884 | 28490 | 222 | 28632 | 726 | 57 | 7.8512 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.7400 | 74.7573 | 90.1615 | 62.2924 | 616 | 208 | 614 | 67 | 57 | 85.0746 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | homalt | 81.4736 | 82.2350 | 80.7263 | 86.0483 | 287 | 62 | 289 | 69 | 57 | 82.6087 | |
| cchapple-custom | INDEL | I16_PLUS | * | homalt | 98.0326 | 99.8078 | 96.3194 | 65.1446 | 1558 | 3 | 1544 | 59 | 57 | 96.6102 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | het | 95.5765 | 97.8972 | 93.3633 | 64.0953 | 838 | 18 | 830 | 59 | 57 | 96.6102 | |
| ckim-gatk | INDEL | * | HG002compoundhet | hetalt | 95.5666 | 91.7156 | 99.7551 | 50.3022 | 23094 | 2086 | 23217 | 57 | 57 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7701 | 99.9578 | 97.6102 | 56.2071 | 2369 | 1 | 2369 | 58 | 57 | 98.2759 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 47.3815 | 82.3646 | 33.2564 | 79.3607 | 1247 | 267 | 1297 | 2603 | 57 | 2.1898 | |
| ciseli-custom | SNP | ti | map_l100_m0_e0 | het | 78.5726 | 72.8313 | 85.2966 | 78.4054 | 10184 | 3799 | 10181 | 1755 | 57 | 3.2479 | |
| ciseli-custom | SNP | tv | map_l125_m1_e0 | het | 74.2570 | 68.0229 | 81.7491 | 80.4845 | 6888 | 3238 | 6889 | 1538 | 57 | 3.7061 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.9474 | 92.0408 | 82.3881 | 83.0380 | 451 | 39 | 276 | 59 | 57 | 96.6102 | |
| gduggal-snapfb | INDEL | * | map_siren | het | 93.3260 | 92.3026 | 94.3724 | 79.8904 | 4161 | 347 | 4293 | 256 | 57 | 22.2656 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0403 | 91.4014 | 98.9810 | 39.0442 | 2498 | 235 | 6994 | 72 | 57 | 79.1667 | |
| eyeh-varpipe | SNP | tv | * | homalt | 99.9630 | 99.9676 | 99.9583 | 19.9401 | 377001 | 122 | 371165 | 155 | 57 | 36.7742 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 29.7872 | 24.6479 | 37.6344 | 33.0935 | 35 | 107 | 35 | 58 | 57 | 98.2759 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.9527 | 87.7778 | 90.1596 | 65.0395 | 553 | 77 | 678 | 74 | 57 | 77.0270 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.1378 | 44.2087 | 94.0120 | 60.5667 | 500 | 631 | 942 | 60 | 57 | 95.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 91.7798 | 92.5682 | 91.0048 | 77.6662 | 984 | 79 | 951 | 94 | 57 | 60.6383 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 93.0462 | 99.6956 | 87.2283 | 80.4151 | 655 | 2 | 642 | 94 | 57 | 60.6383 | |
| gduggal-bwavard | INDEL | D1_5 | segdup | * | 92.2805 | 91.6591 | 92.9104 | 95.4235 | 1011 | 92 | 996 | 76 | 57 | 75.0000 | |
| gduggal-bwavard | INDEL | D1_5 | segdup | het | 93.9882 | 98.5549 | 89.8260 | 96.1006 | 682 | 10 | 671 | 76 | 57 | 75.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | * | homalt | 90.8801 | 84.1132 | 98.8312 | 57.2595 | 5321 | 1005 | 5327 | 63 | 57 | 90.4762 | |
| jpowers-varprowl | SNP | ti | map_l250_m1_e0 | * | 95.2339 | 94.6932 | 95.7809 | 91.0914 | 4336 | 243 | 4336 | 191 | 57 | 29.8429 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | * | 95.5047 | 95.0280 | 95.9863 | 91.4473 | 4759 | 249 | 4759 | 199 | 57 | 28.6432 | |
| jpowers-varprowl | SNP | ti | map_siren | homalt | 99.6196 | 99.4567 | 99.7830 | 54.0684 | 37710 | 206 | 37711 | 82 | 57 | 69.5122 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 65.9144 | 1406 | 480 | 1401 | 64 | 57 | 89.0625 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7284 | 99.9156 | 97.5690 | 55.8647 | 2368 | 2 | 2368 | 59 | 57 | 96.6102 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1651 | 96.1994 | 98.1505 | 57.1994 | 3088 | 122 | 3078 | 58 | 57 | 98.2759 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.8097 | 92.2658 | 99.6368 | 36.6287 | 15413 | 1292 | 15635 | 57 | 57 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | het | 87.2979 | 80.1505 | 95.8449 | 75.4255 | 1385 | 343 | 1384 | 60 | 57 | 95.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8080 | 95.5101 | 98.1417 | 64.0023 | 3127 | 147 | 3116 | 59 | 57 | 96.6102 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8619 | 95.7143 | 94.0246 | 80.9444 | 1273 | 57 | 1070 | 68 | 57 | 83.8235 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.3310 | 91.5713 | 93.1034 | 71.6850 | 880 | 81 | 837 | 62 | 57 | 91.9355 | |
| jlack-gatk | SNP | * | map_l250_m1_e0 | het | 90.7389 | 97.8759 | 84.5721 | 93.7676 | 4654 | 101 | 4654 | 849 | 57 | 6.7138 | |
| jli-custom | INDEL | * | HG002complexvar | homalt | 99.8318 | 99.8964 | 99.7673 | 56.4104 | 26999 | 28 | 27007 | 63 | 57 | 90.4762 | |
| jli-custom | INDEL | * | HG002compoundhet | hetalt | 96.5598 | 93.5624 | 99.7556 | 52.2097 | 23559 | 1621 | 23678 | 58 | 57 | 98.2759 | |
| qzeng-custom | SNP | * | segdup | homalt | 99.2653 | 99.1250 | 99.4061 | 87.8458 | 10649 | 94 | 10544 | 63 | 57 | 90.4762 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002complexvar | homalt | 99.1510 | 99.0259 | 99.2764 | 48.8027 | 13317 | 131 | 13308 | 97 | 57 | 58.7629 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7613 | 96.7656 | 96.7570 | 71.4697 | 1825 | 61 | 1820 | 61 | 57 | 93.4426 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | homalt | 69.3694 | 67.5439 | 71.2963 | 80.2016 | 154 | 74 | 154 | 62 | 57 | 91.9355 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e1 | homalt | 74.9478 | 66.4815 | 85.8852 | 77.4663 | 359 | 181 | 359 | 59 | 57 | 96.6102 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 43.9656 | 31.1283 | 74.8222 | 59.1398 | 1087 | 2405 | 1052 | 354 | 57 | 16.1017 | |