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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71651-71700 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | func_cds | het | 59.9589 | 51.8692 | 71.0383 | 65.2751 | 111 | 103 | 130 | 53 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m2_e1 | het | 77.2841 | 88.7324 | 68.4524 | 86.1272 | 63 | 8 | 115 | 53 | 35 | 66.0377 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 34.7826 | 47.6190 | 27.3973 | 95.0441 | 20 | 22 | 20 | 53 | 3 | 5.6604 | |
| gduggal-snapvard | INDEL | D1_5 | HG002compoundhet | homalt | 75.8563 | 69.7595 | 83.1210 | 54.7550 | 203 | 88 | 261 | 53 | 49 | 92.4528 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m1_e0 | * | 82.5979 | 77.6680 | 88.1960 | 95.0708 | 393 | 113 | 396 | 53 | 2 | 3.7736 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_siren | * | 63.0655 | 62.9371 | 63.1944 | 94.7137 | 90 | 53 | 91 | 53 | 38 | 71.6981 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_siren | het | 72.0679 | 93.5897 | 58.5938 | 93.8343 | 73 | 5 | 75 | 53 | 38 | 71.6981 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.5249 | 95.8559 | 99.2531 | 52.1381 | 7078 | 306 | 7043 | 53 | 40 | 75.4717 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.1563 | 97.8654 | 90.7180 | 83.3187 | 596 | 13 | 518 | 53 | 40 | 75.4717 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.8775 | 93.1174 | 92.6389 | 73.8277 | 690 | 51 | 667 | 53 | 47 | 88.6792 | |
| jlack-gatk | SNP | * | HG002complexvar | homalt | 99.9456 | 99.9096 | 99.9816 | 19.7398 | 288313 | 261 | 288284 | 53 | 46 | 86.7925 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5086 | 99.8706 | 99.1491 | 56.7671 | 6176 | 8 | 6176 | 53 | 2 | 3.7736 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.1302 | 99.5045 | 98.7588 | 79.7621 | 4217 | 21 | 4217 | 53 | 8 | 15.0943 | |
| jli-custom | INDEL | * | map_siren | * | 98.8895 | 98.5020 | 99.2800 | 80.4395 | 7299 | 111 | 7308 | 53 | 17 | 32.0755 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | homalt | 47.5248 | 100.0000 | 31.1688 | 71.0526 | 24 | 0 | 24 | 53 | 52 | 98.1132 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | * | 94.8024 | 92.3472 | 97.3917 | 52.6892 | 1979 | 164 | 1979 | 53 | 52 | 98.1132 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2768 | 95.4919 | 99.1297 | 62.3353 | 6037 | 285 | 6037 | 53 | 43 | 81.1321 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2768 | 95.4919 | 99.1297 | 62.3353 | 6037 | 285 | 6037 | 53 | 43 | 81.1321 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.1557 | 94.5865 | 89.8467 | 85.0129 | 629 | 36 | 469 | 53 | 47 | 88.6792 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2247 | 98.6289 | 99.8277 | 67.0916 | 30716 | 427 | 30716 | 53 | 3 | 5.6604 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.3822 | 95.4389 | 99.4064 | 62.1615 | 8872 | 424 | 8875 | 53 | 52 | 98.1132 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6089 | 93.9727 | 99.3973 | 31.2378 | 8731 | 560 | 8741 | 53 | 52 | 98.1132 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6089 | 93.9727 | 99.3973 | 31.2378 | 8731 | 560 | 8741 | 53 | 52 | 98.1132 | |
| raldana-dualsentieon | SNP | tv | HG002complexvar | * | 99.8458 | 99.7136 | 99.9784 | 21.7224 | 245447 | 705 | 245362 | 53 | 18 | 33.9623 | |
| raldana-dualsentieon | SNP | tv | segdup | * | 99.5671 | 99.7656 | 99.3693 | 91.0002 | 8512 | 20 | 8508 | 54 | 6 | 11.1111 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.9933 | 91.3832 | 96.7568 | 85.7571 | 1612 | 152 | 1611 | 54 | 24 | 44.4444 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m1_e0 | het | 98.7963 | 97.9633 | 99.6436 | 50.7412 | 15103 | 314 | 15098 | 54 | 2 | 3.7037 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 77.1546 | 63.0485 | 99.3919 | 33.0569 | 8678 | 5086 | 8826 | 54 | 53 | 98.1481 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | het | 85.2572 | 76.0650 | 96.9765 | 74.1833 | 1732 | 545 | 1732 | 54 | 36 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 73.5160 | 59.0220 | 97.4456 | 46.9644 | 2257 | 1567 | 2060 | 54 | 42 | 77.7778 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 74.4043 | 72.9730 | 75.8929 | 83.4686 | 162 | 60 | 170 | 54 | 48 | 88.8889 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 81.9603 | 79.1667 | 84.9582 | 78.0562 | 304 | 80 | 305 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.1325 | 95.2756 | 69.1429 | 50.8427 | 121 | 6 | 121 | 54 | 40 | 74.0741 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.2239 | 74.1883 | 89.7338 | 67.9659 | 457 | 159 | 472 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D6_15 | * | hetalt | 65.7378 | 49.3394 | 98.4629 | 43.6387 | 4033 | 4141 | 3459 | 54 | 41 | 75.9259 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.7599 | 90.0688 | 95.6169 | 66.4762 | 1179 | 130 | 1178 | 54 | 28 | 51.8519 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.3568 | 80.3493 | 91.0299 | 77.5037 | 552 | 135 | 548 | 54 | 32 | 59.2593 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| ltrigg-rtg2 | SNP | * | map_l125_m1_e0 | het | 98.5086 | 97.2457 | 99.8048 | 55.1586 | 27610 | 782 | 27610 | 54 | 6 | 11.1111 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 96.5184 | 0 | 0 | 0 | 54 | 0 | 0.0000 | ||
| qzeng-custom | SNP | * | func_cds | * | 99.7598 | 99.8182 | 99.7016 | 28.7413 | 18117 | 33 | 18040 | 54 | 4 | 7.4074 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2222 | 98.4038 | 98.0413 | 45.0797 | 1048 | 17 | 2703 | 54 | 37 | 68.5185 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | * | 96.5889 | 95.5575 | 97.6430 | 32.3191 | 2237 | 104 | 2237 | 54 | 53 | 98.1481 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9179 | 98.5780 | 99.2602 | 53.6895 | 7279 | 105 | 7245 | 54 | 49 | 90.7407 | |
| jpowers-varprowl | INDEL | I6_15 | map_siren | * | 66.5799 | 58.6885 | 76.9231 | 81.1897 | 179 | 126 | 180 | 54 | 53 | 98.1481 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 81.5154 | 91.4474 | 73.5294 | 93.1267 | 139 | 13 | 150 | 54 | 3 | 5.5556 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.3384 | 99.1260 | 97.5632 | 72.9162 | 2155 | 19 | 2162 | 54 | 14 | 25.9259 | |
| jpowers-varprowl | SNP | tv | map_l100_m1_e0 | homalt | 99.1519 | 98.9052 | 99.3999 | 66.3513 | 8944 | 99 | 8944 | 54 | 39 | 72.2222 | |
| jmaeng-gatk | SNP | tv | map_l250_m1_e0 | het | 70.8070 | 56.4633 | 94.9200 | 96.9245 | 1009 | 778 | 1009 | 54 | 1 | 1.8519 | |