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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58801-58850 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l250_m1_e0 | het | 97.3617 | 96.0269 | 98.7342 | 85.3704 | 1716 | 71 | 1716 | 22 | 7 | 31.8182 | |
| ciseli-custom | INDEL | D1_5 | segdup | het | 92.5651 | 94.3642 | 90.8333 | 95.6342 | 653 | 39 | 654 | 66 | 21 | 31.8182 | |
| gduggal-bwafb | INDEL | D1_5 | * | het | 98.9590 | 98.4961 | 99.4263 | 56.5657 | 86257 | 1317 | 92550 | 534 | 170 | 31.8352 | |
| bgallagher-sentieon | SNP | * | HG002complexvar | het | 99.9449 | 99.9235 | 99.9662 | 18.4844 | 465141 | 356 | 465011 | 157 | 50 | 31.8471 | |
| jli-custom | SNP | ti | map_l100_m1_e0 | * | 99.4974 | 99.3240 | 99.6713 | 60.4603 | 47607 | 324 | 47605 | 157 | 50 | 31.8471 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | het | 83.3579 | 80.6410 | 86.2642 | 49.0301 | 2516 | 604 | 1972 | 314 | 100 | 31.8471 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.7305 | 99.3032 | 94.2877 | 46.8635 | 6698 | 47 | 6685 | 405 | 129 | 31.8519 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 75.4927 | 64.2630 | 91.4781 | 75.0188 | 1212 | 674 | 1213 | 113 | 36 | 31.8584 | |
| jpowers-varprowl | SNP | * | map_l150_m1_e0 | * | 97.1070 | 96.6121 | 97.6070 | 79.3678 | 29572 | 1037 | 29572 | 725 | 231 | 31.8621 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.3772 | 92.4257 | 96.4128 | 70.4962 | 3734 | 306 | 3709 | 138 | 44 | 31.8841 | |
| ciseli-custom | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 18.3432 | 95.1255 | 0 | 0 | 31 | 138 | 44 | 31.8841 | |
| hfeng-pmm1 | SNP | tv | map_siren | * | 99.7188 | 99.5885 | 99.8494 | 56.2301 | 45741 | 189 | 45734 | 69 | 22 | 31.8841 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.1362 | 81.1475 | 85.2248 | 77.0629 | 396 | 92 | 398 | 69 | 22 | 31.8841 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | * | 95.7982 | 95.3125 | 96.2888 | 84.7317 | 11468 | 564 | 11468 | 442 | 141 | 31.9005 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e1 | het | 96.9708 | 96.4374 | 97.5102 | 78.4083 | 18407 | 680 | 18407 | 470 | 150 | 31.9149 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5323 | 99.5000 | 99.5646 | 79.8322 | 10747 | 54 | 10747 | 47 | 15 | 31.9149 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e0 | * | 85.1445 | 92.4716 | 78.8934 | 90.8735 | 1302 | 106 | 1768 | 473 | 151 | 31.9239 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 55.0640 | 44.6809 | 71.7340 | 85.7770 | 252 | 312 | 302 | 119 | 38 | 31.9328 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | * | 85.0852 | 92.2863 | 78.9265 | 90.9345 | 1328 | 111 | 1794 | 479 | 153 | 31.9415 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8169 | 99.8526 | 99.7812 | 60.4097 | 55549 | 82 | 55631 | 122 | 39 | 31.9672 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | * | 98.6735 | 98.5034 | 98.8442 | 76.2289 | 12571 | 191 | 12571 | 147 | 47 | 31.9728 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.4986 | 87.0629 | 98.6582 | 85.3332 | 27114 | 4029 | 27131 | 369 | 118 | 31.9783 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.4986 | 87.0629 | 98.6582 | 85.3332 | 27114 | 4029 | 27131 | 369 | 118 | 31.9783 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e0 | het | 96.9503 | 96.4187 | 97.4878 | 78.3661 | 18200 | 676 | 18200 | 469 | 150 | 31.9829 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 82.5030 | 79.8704 | 85.3152 | 53.3915 | 8872 | 2236 | 10353 | 1782 | 570 | 31.9865 | |
| gduggal-bwaplat | INDEL | * | map_l100_m2_e1 | het | 83.4646 | 72.3858 | 98.5474 | 93.4041 | 1696 | 647 | 1696 | 25 | 8 | 32.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e0 | het | 98.2510 | 98.1688 | 98.3333 | 82.0789 | 1233 | 23 | 1475 | 25 | 8 | 32.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e1 | het | 98.2268 | 98.1073 | 98.3466 | 82.2535 | 1244 | 24 | 1487 | 25 | 8 | 32.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | het | 98.5457 | 97.9487 | 99.1499 | 50.4465 | 3056 | 64 | 2916 | 25 | 8 | 32.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3667 | 99.1478 | 99.5866 | 78.9281 | 6050 | 52 | 6022 | 25 | 8 | 32.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6357 | 95.4248 | 97.8778 | 71.6350 | 1168 | 56 | 1153 | 25 | 8 | 32.0000 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e0 | homalt | 94.8057 | 91.9112 | 97.8885 | 80.1409 | 1159 | 102 | 1159 | 25 | 8 | 32.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.8707 | 99.8790 | 99.8625 | 38.9762 | 18161 | 22 | 18154 | 25 | 8 | 32.0000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0037 | 98.8395 | 99.1683 | 69.7220 | 2981 | 35 | 2981 | 25 | 8 | 32.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.1544 | 97.1410 | 99.1891 | 68.9245 | 3058 | 90 | 3058 | 25 | 8 | 32.0000 | |
| ciseli-custom | INDEL | D6_15 | segdup | het | 78.3734 | 80.4348 | 76.4151 | 94.8494 | 74 | 18 | 81 | 25 | 8 | 32.0000 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.4043 | 74.2857 | 35.8974 | 92.5643 | 26 | 9 | 28 | 50 | 16 | 32.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.7099 | 99.7915 | 99.6285 | 54.4538 | 6702 | 14 | 6704 | 25 | 8 | 32.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | * | 98.5850 | 98.3151 | 98.8564 | 86.6789 | 2159 | 37 | 2161 | 25 | 8 | 32.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.8920 | 97.4192 | 92.4926 | 87.6892 | 4039 | 107 | 4078 | 331 | 106 | 32.0242 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 82.7682 | 83.3333 | 82.2107 | 69.9221 | 470 | 94 | 476 | 103 | 33 | 32.0388 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | het | 76.4321 | 76.3529 | 76.5115 | 47.4370 | 649 | 201 | 6049 | 1857 | 595 | 32.0409 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | het | 82.9422 | 78.7616 | 87.5915 | 48.3471 | 1361 | 367 | 6939 | 983 | 315 | 32.0448 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 77.1866 | 71.6422 | 83.6612 | 80.1878 | 23811 | 9425 | 27896 | 5448 | 1746 | 32.0485 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.6210 | 97.3818 | 93.9229 | 89.2161 | 2306 | 62 | 2411 | 156 | 50 | 32.0513 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | het | 83.1436 | 87.7585 | 78.9898 | 84.5440 | 1061 | 148 | 1079 | 287 | 92 | 32.0557 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9380 | 99.2225 | 98.6552 | 35.2022 | 3956 | 31 | 3888 | 53 | 17 | 32.0755 | |
| jli-custom | INDEL | * | map_siren | * | 98.8895 | 98.5020 | 99.2800 | 80.4395 | 7299 | 111 | 7308 | 53 | 17 | 32.0755 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | het | 99.0340 | 98.4126 | 99.6632 | 64.7264 | 15685 | 253 | 15685 | 53 | 17 | 32.0755 | |