PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43601-43650 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6590 | 71.5000 | 97.9452 | 72.2960 | 143 | 57 | 143 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.0162 | 71.4904 | 98.9726 | 45.1128 | 1156 | 461 | 1156 | 12 | 11 | 91.6667 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 83.1268 | 71.4871 | 99.2941 | 36.3772 | 1221 | 487 | 422 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.1458 | 71.4848 | 99.3528 | 29.1555 | 1815 | 724 | 1842 | 12 | 9 | 75.0000 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | * | 76.6548 | 71.4839 | 82.6322 | 82.1021 | 8117 | 3238 | 8112 | 1705 | 399 | 23.4018 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l100_m2_e1 | * | 82.9443 | 71.4801 | 98.7883 | 92.1357 | 1386 | 553 | 1386 | 17 | 7 | 41.1765 | |
| gduggal-snapplat | INDEL | * | segdup | * | 77.9673 | 71.4789 | 85.7514 | 96.5099 | 1827 | 729 | 1980 | 329 | 27 | 8.2067 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | hetalt | 83.2751 | 71.4771 | 99.7378 | 70.8280 | 7989 | 3188 | 7987 | 21 | 17 | 80.9524 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 72.6300 | 71.4689 | 73.8294 | 38.5577 | 4812 | 1921 | 5913 | 2096 | 1645 | 78.4828 | |
| gduggal-bwaplat | INDEL | I1_5 | * | hetalt | 82.6726 | 71.4515 | 98.0748 | 76.8337 | 7999 | 3196 | 7998 | 157 | 152 | 96.8153 | |
| gduggal-bwaplat | INDEL | * | map_siren | homalt | 83.1471 | 71.4501 | 99.4235 | 85.0984 | 1897 | 758 | 1897 | 11 | 10 | 90.9091 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 82.8931 | 71.4423 | 98.7151 | 55.3864 | 2229 | 891 | 2228 | 29 | 26 | 89.6552 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 82.7487 | 71.4392 | 98.3125 | 49.4079 | 1916 | 766 | 1806 | 31 | 20 | 64.5161 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l150_m1_e0 | het | 68.9655 | 71.4286 | 66.6667 | 90.5660 | 10 | 4 | 10 | 5 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e0 | homalt | 74.0741 | 71.4286 | 76.9231 | 88.9831 | 20 | 8 | 20 | 6 | 6 | 100.0000 | |
| qzeng-custom | SNP | ti | map_l100_m0_e0 | hetalt | 83.3333 | 71.4286 | 100.0000 | 89.8990 | 10 | 4 | 10 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m1_e0 | hetalt | 83.3333 | 71.4286 | 100.0000 | 97.1429 | 5 | 2 | 5 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m2_e0 | hetalt | 83.3333 | 71.4286 | 100.0000 | 97.3958 | 5 | 2 | 5 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | C1_5 | HG002complexvar | * | 71.4286 | 100.0000 | 5 | 2 | 0 | 0 | 0 | ||||
| rpoplin-dv42 | INDEL | C1_5 | HG002complexvar | het | 71.4286 | 100.0000 | 5 | 2 | 0 | 0 | 0 | ||||
| qzeng-custom | INDEL | D6_15 | map_l150_m0_e0 | homalt | 77.9221 | 71.4286 | 85.7143 | 94.8905 | 5 | 2 | 6 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_siren | homalt | 69.6721 | 71.4286 | 68.0000 | 85.3801 | 15 | 6 | 17 | 8 | 1 | 12.5000 | |
| qzeng-custom | INDEL | C1_5 | HG002complexvar | * | 80.7714 | 71.4286 | 92.9260 | 89.3893 | 5 | 2 | 289 | 22 | 4 | 18.1818 | |
| qzeng-custom | INDEL | C1_5 | HG002complexvar | het | 80.8034 | 71.4286 | 93.0108 | 89.6031 | 5 | 2 | 173 | 13 | 1 | 7.6923 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 83.3333 | 71.4286 | 100.0000 | 91.2698 | 25 | 10 | 22 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | map_l150_m1_e0 | homalt | 83.3333 | 71.4286 | 100.0000 | 95.6140 | 5 | 2 | 5 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I6_15 | map_l150_m2_e0 | homalt | 83.3333 | 71.4286 | 100.0000 | 96.1832 | 5 | 2 | 5 | 0 | 0 | ||
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 83.3333 | 71.4286 | 100.0000 | 96.7742 | 5 | 2 | 5 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I6_15 | map_l150_m1_e0 | homalt | 76.9231 | 71.4286 | 83.3333 | 94.5946 | 5 | 2 | 5 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | map_l150_m2_e0 | homalt | 76.9231 | 71.4286 | 83.3333 | 95.3125 | 5 | 2 | 5 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | C1_5 | HG002complexvar | * | 63.2248 | 71.4286 | 56.7114 | 83.4812 | 5 | 2 | 169 | 129 | 19 | 14.7287 | |
| anovak-vg | INDEL | C1_5 | HG002complexvar | het | 55.6456 | 71.4286 | 45.5752 | 82.8658 | 5 | 2 | 103 | 123 | 15 | 12.1951 | |
| astatham-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 76.9231 | 71.4286 | 83.3333 | 97.9381 | 5 | 2 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | C1_5 | HG002complexvar | * | 0.0000 | 71.4286 | 0.0000 | 75.2632 | 5 | 2 | 0 | 141 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C1_5 | HG002complexvar | het | 0.0000 | 71.4286 | 0.0000 | 70.5128 | 5 | 2 | 0 | 115 | 0 | 0.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m1_e0 | homalt | 74.4681 | 71.4286 | 77.7778 | 91.4286 | 5 | 2 | 7 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e0 | homalt | 74.4681 | 71.4286 | 77.7778 | 92.8000 | 5 | 2 | 7 | 2 | 1 | 50.0000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 65.2174 | 71.4286 | 60.0000 | 94.8454 | 5 | 2 | 6 | 4 | 2 | 50.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 73.8636 | 71.4286 | 76.4706 | 89.6024 | 25 | 10 | 26 | 8 | 5 | 62.5000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l250_m1_e0 | * | 76.9231 | 71.4286 | 83.3333 | 97.8947 | 5 | 2 | 5 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 83.3333 | 71.4286 | 100.0000 | 94.9495 | 5 | 2 | 5 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 74.2459 | 71.4286 | 77.2947 | 60.6089 | 435 | 174 | 320 | 94 | 92 | 97.8723 | |
| dgrover-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 76.9231 | 71.4286 | 83.3333 | 97.9798 | 5 | 2 | 5 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 79.2866 | 71.4286 | 89.0873 | 67.9389 | 440 | 176 | 449 | 55 | 49 | 89.0909 | |
| egarrison-hhga | INDEL | I16_PLUS | map_siren | homalt | 76.9231 | 71.4286 | 83.3333 | 85.1240 | 15 | 6 | 15 | 3 | 2 | 66.6667 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 83.3333 | 71.4286 | 100.0000 | 95.6140 | 5 | 2 | 5 | 0 | 0 | ||
| ckim-vqsr | INDEL | I6_15 | map_l250_m1_e0 | * | 83.3333 | 71.4286 | 100.0000 | 98.7047 | 5 | 2 | 5 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1918 | 71.4286 | 96.7742 | 97.3067 | 30 | 12 | 30 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1918 | 71.4286 | 96.7742 | 97.3299 | 30 | 12 | 30 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 83.3333 | 71.4286 | 100.0000 | 98.6631 | 5 | 2 | 5 | 0 | 0 | ||