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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21351-21400 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | * | map_l250_m2_e0 | homalt | 46.8643 | 30.6031 | 100.0000 | 95.5710 | 822 | 1864 | 821 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | * | map_l125_m0_e0 | * | 95.9750 | 93.1973 | 98.9234 | 83.1757 | 822 | 60 | 827 | 9 | 2 | 22.2222 | |
| jli-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 99.2158 | 99.0361 | 99.3961 | 84.2466 | 822 | 8 | 823 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e0 | * | 97.5042 | 95.7993 | 99.2710 | 82.8542 | 821 | 36 | 817 | 6 | 1 | 16.6667 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.6398 | 99.5152 | 90.2198 | 70.6072 | 821 | 4 | 821 | 89 | 86 | 96.6292 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7982 | 98.9157 | 98.6811 | 85.9241 | 821 | 9 | 823 | 11 | 2 | 18.1818 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.1774 | 93.6073 | 92.7515 | 79.6508 | 820 | 56 | 627 | 49 | 48 | 97.9592 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.9155 | 98.7952 | 99.0361 | 84.0996 | 820 | 10 | 822 | 8 | 2 | 25.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m0_e0 | * | 97.2714 | 95.0174 | 99.6350 | 76.9941 | 820 | 43 | 819 | 3 | 1 | 33.3333 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | het | 95.9122 | 96.4706 | 95.3602 | 73.5551 | 820 | 30 | 781 | 38 | 14 | 36.8421 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3337 | 99.5146 | 99.1536 | 70.9926 | 820 | 4 | 820 | 7 | 1 | 14.2857 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7373 | 98.7952 | 98.6795 | 85.8454 | 820 | 10 | 822 | 11 | 2 | 18.1818 | |
| cchapple-custom | SNP | tv | map_l250_m1_e0 | homalt | 97.8520 | 95.7944 | 100.0000 | 84.1085 | 820 | 36 | 820 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0937 | 99.5146 | 98.6763 | 71.9257 | 820 | 4 | 820 | 11 | 1 | 9.0909 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7394 | 98.7952 | 96.7059 | 89.6278 | 820 | 10 | 822 | 28 | 3 | 10.7143 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.0708 | 69.3739 | 97.5118 | 50.5855 | 820 | 362 | 823 | 21 | 20 | 95.2381 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | het | 93.9997 | 95.9064 | 92.1674 | 89.8264 | 820 | 35 | 859 | 73 | 11 | 15.0685 | |
| ckim-vqsr | SNP | * | HG002compoundhet | hetalt | 97.5030 | 95.1276 | 100.0000 | 23.3645 | 820 | 42 | 820 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | HG002compoundhet | hetalt | 97.5030 | 95.1276 | 100.0000 | 23.3645 | 820 | 42 | 820 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | map_l100_m0_e0 | * | 87.0777 | 95.0174 | 80.3625 | 87.2790 | 820 | 43 | 1064 | 260 | 71 | 27.3077 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5140 | 99.3932 | 99.6350 | 71.2386 | 819 | 5 | 819 | 3 | 1 | 33.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.6744 | 99.2727 | 96.1268 | 69.7551 | 819 | 6 | 819 | 33 | 32 | 96.9697 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.6744 | 99.2727 | 96.1268 | 69.7551 | 819 | 6 | 819 | 33 | 32 | 96.9697 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.8533 | 98.6747 | 99.0326 | 85.4529 | 819 | 11 | 819 | 8 | 1 | 12.5000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3932 | 99.3932 | 99.3932 | 71.3192 | 819 | 5 | 819 | 5 | 1 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7342 | 98.6747 | 98.7937 | 86.0391 | 819 | 11 | 819 | 10 | 2 | 20.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5140 | 99.3932 | 99.6350 | 71.6258 | 819 | 5 | 819 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7950 | 98.6747 | 98.9157 | 86.7327 | 819 | 11 | 821 | 9 | 2 | 22.2222 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.3098 | 85.7592 | 86.8676 | 76.1917 | 819 | 136 | 807 | 122 | 105 | 86.0656 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | homalt | 69.4068 | 63.9344 | 75.9036 | 85.6497 | 819 | 462 | 819 | 260 | 212 | 81.5385 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2727 | 99.3932 | 99.1525 | 71.5271 | 819 | 5 | 819 | 7 | 1 | 14.2857 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.5802 | 99.2727 | 94.0299 | 72.0565 | 819 | 6 | 819 | 52 | 51 | 98.0769 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.5802 | 99.2727 | 94.0299 | 72.0565 | 819 | 6 | 819 | 52 | 51 | 98.0769 | |
| ckim-dragen | INDEL | * | map_l150_m1_e0 | het | 95.1716 | 95.6725 | 94.6759 | 91.3591 | 818 | 37 | 818 | 46 | 5 | 10.8696 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4390 | 99.1515 | 95.7845 | 70.5720 | 818 | 7 | 818 | 36 | 34 | 94.4444 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4390 | 99.1515 | 95.7845 | 70.5720 | 818 | 7 | 818 | 36 | 34 | 94.4444 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 96.5825 | 98.5542 | 94.6882 | 89.3152 | 818 | 12 | 820 | 46 | 4 | 8.6957 | |
| gduggal-snapplat | SNP | tv | HG002compoundhet | hetalt | 97.1488 | 94.8956 | 99.5116 | 22.8814 | 818 | 44 | 815 | 4 | 4 | 100.0000 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | hetalt | 97.1488 | 94.8956 | 99.5116 | 22.8814 | 818 | 44 | 815 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 97.7337 | 98.5542 | 96.9267 | 89.8768 | 818 | 12 | 820 | 26 | 3 | 11.5385 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3925 | 99.2718 | 99.5134 | 71.4682 | 818 | 6 | 818 | 4 | 1 | 25.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.7884 | 96.1222 | 99.5134 | 88.6370 | 818 | 33 | 818 | 4 | 4 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.5553 | 95.3380 | 99.8782 | 41.5658 | 818 | 40 | 820 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 80.7503 | 68.3682 | 98.6094 | 40.8377 | 817 | 378 | 780 | 11 | 9 | 81.8182 | |
| ckim-vqsr | SNP | * | map_l250_m0_e0 | * | 54.9244 | 38.2670 | 97.2619 | 98.4570 | 817 | 1318 | 817 | 23 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4522 | 99.1505 | 99.7558 | 69.0710 | 817 | 7 | 817 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3917 | 99.1505 | 99.6341 | 69.2077 | 817 | 7 | 817 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 62.4653 | 60.2952 | 64.7975 | 51.6129 | 817 | 538 | 1040 | 565 | 411 | 72.7434 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | het | 83.6409 | 73.8031 | 96.5049 | 50.3136 | 817 | 290 | 994 | 36 | 33 | 91.6667 | |