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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29801-29850 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.4541 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 18.3933 | 12.4471 | 35.2174 | 39.3140 | 147 | 1034 | 162 | 298 | 265 | 88.9262 | |
| anovak-vg | INDEL | D6_15 | map_l100_m1_e0 | * | 69.8276 | 62.7907 | 78.6408 | 85.3172 | 162 | 96 | 162 | 44 | 27 | 61.3636 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.0752 | 90.4494 | 95.8580 | 71.6918 | 161 | 17 | 162 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.1080 | 66.2395 | 98.1818 | 59.6577 | 2533 | 1291 | 162 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D6_15 | segdup | * | 86.7731 | 83.7696 | 90.0000 | 91.8182 | 160 | 31 | 162 | 18 | 17 | 94.4444 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1963 | 97.6190 | 98.7805 | 79.4486 | 164 | 4 | 162 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.3618 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.0573 | 78.4689 | 90.5028 | 57.9812 | 164 | 45 | 162 | 17 | 12 | 70.5882 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.8852 | 98.1818 | 97.5904 | 90.9635 | 162 | 3 | 162 | 4 | 2 | 50.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.8171 | 162 | 16 | 162 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.4444 | 94.7674 | 98.1818 | 75.3363 | 163 | 9 | 162 | 3 | 1 | 33.3333 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 45.6848 | 32.5820 | 76.4151 | 81.0545 | 159 | 329 | 162 | 50 | 35 | 70.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.3618 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.8996 | 97.6190 | 98.1818 | 75.6637 | 164 | 4 | 162 | 3 | 2 | 66.6667 | |
| rpoplin-dv42 | INDEL | * | map_l150_m0_e0 | homalt | 98.7805 | 98.7805 | 98.7805 | 90.9940 | 162 | 2 | 162 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l150_m0_e0 | homalt | 98.1818 | 98.7805 | 97.5904 | 89.6894 | 162 | 2 | 162 | 4 | 3 | 75.0000 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m1_e0 | homalt | 86.3828 | 79.7980 | 94.1520 | 92.3181 | 158 | 40 | 161 | 10 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m2_e1 | * | 84.2599 | 92.9825 | 77.0335 | 96.0759 | 106 | 8 | 161 | 48 | 13 | 27.0833 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m1_e0 | * | 86.3271 | 94.1520 | 79.7030 | 96.1626 | 161 | 10 | 161 | 41 | 4 | 9.7561 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 89.1967 | 80.5000 | 100.0000 | 50.1548 | 161 | 39 | 161 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | map_l250_m1_e0 | * | 92.0000 | 94.1520 | 89.9441 | 96.9501 | 161 | 10 | 161 | 18 | 1 | 5.5556 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5758 | 97.5758 | 97.5758 | 91.1812 | 161 | 4 | 161 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002compoundhet | het | 73.9198 | 96.6346 | 59.8513 | 81.3194 | 201 | 7 | 161 | 108 | 105 | 97.2222 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.7059 | 90.4494 | 99.3827 | 71.6783 | 161 | 17 | 161 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m1_e0 | * | 83.0171 | 95.9064 | 73.1818 | 95.4081 | 164 | 7 | 161 | 59 | 4 | 6.7797 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l250_m1_e0 | * | 96.6767 | 93.5673 | 100.0000 | 90.7736 | 160 | 11 | 161 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | * | map_l150_m0_e0 | homalt | 98.1707 | 98.1707 | 98.1707 | 90.1855 | 161 | 3 | 161 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.7145 | 97.0238 | 96.4072 | 78.9673 | 163 | 5 | 161 | 6 | 2 | 33.3333 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 99.3827 | 95.6800 | 0 | 0 | 161 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m1_e0 | * | 66.4730 | 62.7907 | 70.6140 | 85.6874 | 162 | 96 | 161 | 67 | 64 | 95.5224 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 93.2666 | 89.8204 | 96.9880 | 69.6527 | 150 | 17 | 161 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l150_m0_e0 | homalt | 98.1707 | 98.1707 | 98.1707 | 91.1923 | 161 | 3 | 161 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 84.7368 | 95.3466 | 0 | 0 | 161 | 29 | 2 | 6.8966 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 70.6140 | 100.0000 | 54.5763 | 33.4086 | 161 | 0 | 161 | 134 | 134 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | HG002compoundhet | het | 92.5867 | 97.1154 | 88.4615 | 85.5556 | 202 | 6 | 161 | 21 | 20 | 95.2381 | |
| ckim-gatk | INDEL | D1_5 | func_cds | * | 99.6885 | 100.0000 | 99.3789 | 53.3333 | 159 | 0 | 160 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D1_5 | func_cds | * | 99.6885 | 100.0000 | 99.3789 | 32.9167 | 159 | 0 | 160 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I1_5 | func_cds | * | 86.4865 | 88.8889 | 84.2105 | 28.0303 | 160 | 20 | 160 | 30 | 19 | 63.3333 | |
| ckim-dragen | INDEL | * | map_l150_m0_e0 | homalt | 98.1651 | 98.1707 | 98.1595 | 90.6697 | 161 | 3 | 160 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 89.3757 | 99.3548 | 81.2183 | 83.8259 | 154 | 1 | 160 | 37 | 34 | 91.8919 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | hetalt | 77.8589 | 64.7773 | 97.5610 | 66.3244 | 160 | 87 | 160 | 4 | 3 | 75.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 23.9090 | 13.7056 | 93.5673 | 71.9672 | 162 | 1020 | 160 | 11 | 10 | 90.9091 | |
| eyeh-varpipe | SNP | ti | map_l125_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 67.5456 | 24 | 0 | 160 | 0 | 0 | ||
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 100.0000 | 100.0000 | 100.0000 | 64.9123 | 1 | 0 | 160 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l150_m0_e0 | homalt | 97.8593 | 97.5610 | 98.1595 | 90.6751 | 160 | 4 | 160 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m0_e0 | homalt | 97.5610 | 97.5610 | 97.5610 | 91.6327 | 160 | 4 | 160 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | D1_5 | func_cds | * | 100.0000 | 100.0000 | 100.0000 | 40.9594 | 159 | 0 | 160 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 93.2945 | 89.8876 | 96.9697 | 75.5193 | 160 | 18 | 160 | 5 | 3 | 60.0000 | |
| ckim-vqsr | INDEL | D1_5 | func_cds | * | 99.6885 | 100.0000 | 99.3789 | 53.3333 | 159 | 0 | 160 | 1 | 0 | 0.0000 | |