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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26651-26700 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 97.9843 | 97.3244 | 98.6532 | 90.9589 | 291 | 8 | 293 | 4 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | HG002compoundhet | * | 98.4045 | 98.1577 | 98.6526 | 40.8633 | 17156 | 322 | 17719 | 242 | 86 | 35.5372 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e1 | homalt | 98.3846 | 98.1183 | 98.6523 | 89.5962 | 365 | 7 | 366 | 5 | 3 | 60.0000 | |
| jlack-gatk | SNP | * | func_cds | * | 99.3020 | 99.9614 | 98.6513 | 31.6355 | 18143 | 7 | 18140 | 248 | 1 | 0.4032 | |
| dgrover-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 98.4582 | 98.2659 | 98.6513 | 90.9250 | 510 | 9 | 512 | 7 | 2 | 28.5714 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3822 | 94.2153 | 98.6511 | 52.7880 | 3290 | 202 | 3291 | 45 | 38 | 84.4444 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2664 | 99.8896 | 98.6509 | 37.0615 | 7239 | 8 | 7239 | 99 | 98 | 98.9899 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | het | 89.4463 | 81.8131 | 98.6505 | 91.5618 | 1462 | 325 | 1462 | 20 | 3 | 15.0000 | |
| bgallagher-sentieon | SNP | tv | map_l100_m1_e0 | het | 99.1089 | 99.5719 | 98.6501 | 70.0769 | 15351 | 66 | 15347 | 210 | 25 | 11.9048 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3143 | 96.0145 | 98.6499 | 82.5698 | 1060 | 44 | 1096 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 93.9683 | 89.7119 | 98.6486 | 88.3311 | 436 | 50 | 438 | 6 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | * | tech_badpromoters | * | 97.3333 | 96.0526 | 98.6486 | 91.8051 | 73 | 3 | 73 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | tech_badpromoters | * | 95.9637 | 93.4211 | 98.6486 | 48.6111 | 71 | 5 | 73 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 94.0939 | 89.9412 | 98.6486 | 45.1271 | 4891 | 547 | 511 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 82.2369 | 70.5069 | 98.6486 | 35.9307 | 153 | 64 | 146 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | * | segdup | hetalt | 99.3197 | 100.0000 | 98.6486 | 95.3371 | 7 | 0 | 73 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_siren | het | 96.7234 | 94.8718 | 98.6486 | 85.2883 | 74 | 4 | 73 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | * | 99.3197 | 100.0000 | 98.6486 | 84.1134 | 4 | 0 | 365 | 5 | 2 | 40.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9762 | 95.3595 | 98.6486 | 84.3187 | 1459 | 71 | 1460 | 20 | 10 | 50.0000 | |
| jli-custom | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.6486 | 98.6486 | 98.6486 | 85.9449 | 146 | 2 | 146 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l125_m0_e0 | * | 64.0727 | 47.4439 | 98.6485 | 91.7531 | 9197 | 10188 | 9197 | 126 | 0 | 0.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2231 | 99.8046 | 98.6484 | 46.1418 | 5107 | 10 | 5109 | 70 | 68 | 97.1429 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.0900 | 99.5359 | 98.6480 | 56.8443 | 6648 | 31 | 6640 | 91 | 88 | 96.7033 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.0824 | 99.5209 | 98.6478 | 57.7394 | 6647 | 32 | 6639 | 91 | 89 | 97.8022 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9212 | 95.2542 | 98.6476 | 65.8841 | 2529 | 126 | 2480 | 34 | 24 | 70.5882 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | het | 81.3082 | 69.1532 | 98.6474 | 89.1453 | 20497 | 9143 | 20494 | 281 | 4 | 1.4235 | |
| raldana-dualsentieon | INDEL | D6_15 | * | * | 97.6719 | 96.7155 | 98.6474 | 52.2270 | 25235 | 857 | 25235 | 346 | 333 | 96.2428 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e0 | homalt | 95.9430 | 93.3831 | 98.6471 | 93.4664 | 875 | 62 | 875 | 12 | 5 | 41.6667 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | het | 99.0167 | 99.3893 | 98.6469 | 75.8815 | 29459 | 181 | 29453 | 404 | 55 | 13.6139 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.5120 | 87.0957 | 98.6467 | 70.2422 | 5386 | 798 | 5394 | 74 | 11 | 14.8649 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0242 | 95.4545 | 98.6464 | 64.6742 | 588 | 28 | 583 | 8 | 8 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 76.2491 | 62.1404 | 98.6463 | 36.1300 | 8553 | 5211 | 7870 | 108 | 94 | 87.0370 | |
| astatham-gatk | INDEL | D1_5 | map_siren | het | 97.1940 | 95.7839 | 98.6462 | 82.2862 | 2181 | 96 | 2186 | 30 | 2 | 6.6667 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | het | 98.3481 | 98.0524 | 98.6456 | 86.0194 | 1309 | 26 | 1311 | 18 | 4 | 22.2222 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 81.5850 | 69.5556 | 98.6454 | 38.9545 | 1894 | 829 | 2039 | 28 | 23 | 82.1429 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1911 | 97.7409 | 98.6454 | 80.0759 | 10557 | 244 | 10559 | 145 | 73 | 50.3448 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | het | 98.4460 | 98.2484 | 98.6443 | 83.0632 | 1234 | 22 | 1237 | 17 | 4 | 23.5294 | |
| mlin-fermikit | SNP | ti | segdup | het | 97.7090 | 96.7914 | 98.6442 | 84.9489 | 11644 | 386 | 11641 | 160 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7277 | 98.8115 | 98.6441 | 72.5709 | 1164 | 14 | 1164 | 16 | 16 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.9392 | 95.2922 | 98.6441 | 64.3073 | 587 | 29 | 582 | 8 | 8 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8983 | 99.1544 | 98.6435 | 64.3687 | 8325 | 71 | 8290 | 114 | 105 | 92.1053 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 57.4257 | 40.5021 | 98.6434 | 49.1124 | 484 | 711 | 509 | 7 | 6 | 85.7143 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9583 | 99.2753 | 98.6433 | 48.3478 | 9452 | 69 | 9452 | 130 | 127 | 97.6923 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 88.1747 | 79.7149 | 98.6431 | 65.5124 | 727 | 185 | 727 | 10 | 8 | 80.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 86.0000 | 76.2299 | 98.6425 | 50.7795 | 1472 | 459 | 218 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 86.0000 | 76.2299 | 98.6425 | 50.7795 | 1472 | 459 | 218 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4782 | 96.3415 | 98.6420 | 70.2969 | 1817 | 69 | 1816 | 25 | 18 | 72.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7839 | 96.9412 | 98.6414 | 47.7167 | 19966 | 630 | 19967 | 275 | 271 | 98.5455 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.1743 | 84.7584 | 98.6411 | 42.0544 | 3192 | 574 | 3194 | 44 | 30 | 68.1818 | |