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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
31851-31900 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.0513 | 91.9890 | 94.1385 | 58.2808 | 333 | 29 | 1060 | 66 | 64 | 96.9697 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 90.6805 | 83.0746 | 99.8195 | 58.2831 | 1124 | 229 | 1106 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 88.8877 | 89.1304 | 88.6463 | 58.2878 | 205 | 25 | 203 | 26 | 26 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.8879 | 97.9575 | 99.8361 | 58.2906 | 1199 | 25 | 1218 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | SNP | * | map_siren | het | 99.4455 | 99.6483 | 99.2436 | 58.2943 | 90671 | 320 | 90657 | 691 | 77 | 11.1433 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 60.1249 | 45.9646 | 86.8947 | 58.2953 | 3138 | 3689 | 3176 | 479 | 423 | 88.3090 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 65.0432 | 50.9569 | 89.8925 | 58.2960 | 426 | 410 | 418 | 47 | 47 | 100.0000 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m0_e0 | homalt | 99.7358 | 99.5369 | 99.9354 | 58.2970 | 7738 | 36 | 7738 | 5 | 5 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | het | 94.9162 | 98.4397 | 91.6362 | 58.2975 | 20441 | 324 | 19546 | 1784 | 1236 | 69.2825 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 74.7354 | 78.9833 | 70.9211 | 58.2978 | 1041 | 277 | 1178 | 483 | 222 | 45.9627 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1774 | 98.9300 | 99.4261 | 58.2999 | 17660 | 191 | 17671 | 102 | 10 | 9.8039 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5645 | 99.8024 | 99.3278 | 58.3031 | 6060 | 12 | 6058 | 41 | 41 | 100.0000 | |
| gduggal-snapfb | INDEL | * | * | homalt | 94.4791 | 93.5105 | 95.4679 | 58.3050 | 117049 | 8123 | 117099 | 5559 | 3925 | 70.6062 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9638 | 99.9277 | 100.0000 | 58.3062 | 1382 | 1 | 1408 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.6073 | 97.0006 | 94.2535 | 58.3072 | 1714 | 53 | 1755 | 107 | 94 | 87.8505 | |
| gduggal-bwafb | INDEL | D6_15 | * | homalt | 94.1794 | 97.6288 | 90.9654 | 58.3129 | 6176 | 150 | 6172 | 613 | 608 | 99.1843 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | homalt | 12.7119 | 96.7742 | 6.8027 | 58.3176 | 30 | 1 | 30 | 411 | 411 | 100.0000 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7805 | 99.7685 | 99.7926 | 58.3234 | 3878 | 9 | 3850 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 92.5148 | 92.3810 | 92.6491 | 58.3237 | 679 | 56 | 668 | 53 | 51 | 96.2264 | |
| ciseli-custom | INDEL | * | HG002complexvar | het | 83.6520 | 81.8863 | 85.4955 | 58.3237 | 37838 | 8370 | 38019 | 6450 | 2732 | 42.3566 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1226 | 96.8012 | 99.4807 | 58.3241 | 34286 | 1133 | 34292 | 179 | 13 | 7.2626 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.6261 | 95.9485 | 93.3397 | 58.3275 | 17430 | 736 | 20671 | 1475 | 1218 | 82.5763 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.6261 | 95.9485 | 93.3397 | 58.3275 | 17430 | 736 | 20671 | 1475 | 1218 | 82.5763 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 50.1828 | 34.9234 | 89.1245 | 58.3302 | 1984 | 3697 | 1975 | 241 | 212 | 87.9668 | |
| ltrigg-rtg2 | SNP | * | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | tv | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I16_PLUS | func_cds | het | 0.0000 | 0.0000 | 60.0000 | 58.3333 | 0 | 9 | 3 | 2 | 2 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | func_cds | * | 86.7470 | 83.7209 | 90.0000 | 58.3333 | 36 | 7 | 36 | 4 | 4 | 100.0000 | |
| ghariani-varprowl | INDEL | D6_15 | tech_badpromoters | het | 90.0000 | 90.0000 | 90.0000 | 58.3333 | 9 | 1 | 9 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | func_cds | het | 90.3226 | 94.9153 | 86.1538 | 58.3333 | 56 | 3 | 56 | 9 | 6 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 58.3333 | 13 | 0 | 13 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 35.9600 | 22.9630 | 82.8571 | 58.3333 | 31 | 104 | 29 | 6 | 3 | 50.0000 | |
| eyeh-varpipe | INDEL | D6_15 | func_cds | homalt | 85.7143 | 75.0000 | 100.0000 | 58.3333 | 9 | 3 | 10 | 0 | 0 | ||
| dgrover-gatk | SNP | * | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| dgrover-gatk | SNP | tv | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.3793 | 86.8852 | 96.3636 | 58.3333 | 53 | 8 | 53 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 89.5864 | 85.3333 | 94.2857 | 58.3333 | 64 | 11 | 66 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 58.3333 | 0 | 0 | 0 | 10 | 0 | 0.0000 | ||
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 5 | 0 | 5 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 5 | 0 | 5 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 80.8511 | 67.8571 | 100.0000 | 58.3333 | 19 | 9 | 20 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.4444 | 91.8919 | 97.1429 | 58.3333 | 34 | 3 | 34 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | * | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 58.3333 | 10 | 0 | 10 | 0 | 0 | ||
| asubramanian-gatk | INDEL | C1_5 | HG002compoundhet | hetalt | 0.0000 | 100.0000 | 0.0000 | 58.3333 | 1 | 0 | 0 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 58.3333 | 13 | 0 | 13 | 2 | 2 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.2117 | 99.6203 | 98.8065 | 58.3355 | 1574 | 6 | 1573 | 19 | 1 | 5.2632 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.7723 | 96.7851 | 94.7804 | 58.3362 | 1144 | 38 | 1144 | 63 | 61 | 96.8254 | |