PrecisionFDA
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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 | |||||||||||||||
| 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 | |
| ckim-vqsr | SNP | tv | HG002compoundhet | hetalt | 97.5030 | 95.1276 | 100.0000 | 23.3645 | 820 | 42 | 820 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | map_l150_m1_e0 | het | 96.9158 | 95.4386 | 98.4394 | 87.9118 | 816 | 39 | 820 | 13 | 1 | 7.6923 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | * | 96.5825 | 98.5542 | 94.6882 | 89.3152 | 818 | 12 | 820 | 46 | 4 | 8.6957 | |
| 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 | |
| jlack-gatk | INDEL | D6_15 | HG002compoundhet | het | 80.7008 | 96.6121 | 69.2893 | 65.6695 | 827 | 29 | 819 | 363 | 325 | 89.5317 | |
| jli-custom | INDEL | D6_15 | HG002compoundhet | het | 93.6150 | 96.6121 | 90.7982 | 65.4935 | 827 | 29 | 819 | 83 | 81 | 97.5904 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m0_e0 | * | 97.2714 | 95.0174 | 99.6350 | 76.9941 | 820 | 43 | 819 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | HG002compoundhet | het | 89.0353 | 96.6121 | 82.5605 | 68.4177 | 827 | 29 | 819 | 173 | 168 | 97.1098 | |
| 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 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.8533 | 98.6747 | 99.0326 | 85.4529 | 819 | 11 | 819 | 8 | 1 | 12.5000 | |
| qzeng-custom | INDEL | * | map_l150_m2_e1 | het | 81.2150 | 72.2944 | 92.6471 | 95.0678 | 668 | 256 | 819 | 65 | 30 | 46.1538 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.1859 | 87.8023 | 99.2727 | 79.4623 | 835 | 116 | 819 | 6 | 5 | 83.3333 | |
| gduggal-bwafb | INDEL | * | map_l150_m1_e0 | het | 95.6334 | 94.2690 | 97.0379 | 88.0521 | 806 | 49 | 819 | 25 | 1 | 4.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.4941 | 94.2149 | 96.8085 | 80.8641 | 912 | 56 | 819 | 27 | 18 | 66.6667 | |
| 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 | |
| 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 | |
| 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 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7342 | 98.6747 | 98.7937 | 86.0391 | 819 | 11 | 819 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.8480 | 83.5616 | 82.1464 | 73.3422 | 732 | 144 | 819 | 178 | 170 | 95.5056 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m2_e1 | * | 96.2844 | 93.7931 | 98.9117 | 88.0681 | 816 | 54 | 818 | 9 | 2 | 22.2222 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 56.8863 | 58.4740 | 55.3825 | 72.7189 | 797 | 566 | 818 | 659 | 497 | 75.4173 | |
| 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 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8828 | 94.3878 | 99.5134 | 33.1707 | 740 | 44 | 818 | 4 | 4 | 100.0000 | |
| 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 | |
| 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 | |
| ckim-dragen | INDEL | * | map_l150_m1_e0 | het | 95.1716 | 95.6725 | 94.6759 | 91.3591 | 818 | 37 | 818 | 46 | 5 | 10.8696 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m0_e0 | * | 91.4210 | 96.1761 | 87.1140 | 87.8478 | 830 | 33 | 818 | 121 | 18 | 14.8760 | |
| gduggal-bwavard | INDEL | I1_5 | map_l125_m2_e1 | * | 94.4260 | 94.9425 | 93.9150 | 88.9970 | 826 | 44 | 818 | 53 | 23 | 43.3962 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 69.4308 | 85.9873 | 58.2206 | 70.8929 | 810 | 132 | 818 | 587 | 575 | 97.9557 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 87.8664 | 96.8421 | 80.4134 | 80.5662 | 828 | 27 | 817 | 199 | 3 | 1.5075 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | het | 80.0362 | 74.4368 | 86.5466 | 93.5607 | 760 | 261 | 817 | 127 | 18 | 14.1732 | |
| 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 | |
| ckim-vqsr | SNP | * | map_l250_m0_e0 | * | 54.9244 | 38.2670 | 97.2619 | 98.4570 | 817 | 1318 | 817 | 23 | 0 | 0.0000 | |
| 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 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002compoundhet | het | 28.9364 | 17.0213 | 96.4581 | 27.6068 | 8 | 39 | 817 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.3146 | 95.6573 | 99.0303 | 86.2431 | 815 | 37 | 817 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e0 | * | 97.5042 | 95.7993 | 99.2710 | 82.8542 | 821 | 36 | 817 | 6 | 1 | 16.6667 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.2572 | 99.6364 | 96.9158 | 68.2486 | 822 | 3 | 817 | 26 | 25 | 96.1538 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.2572 | 99.6364 | 96.9158 | 68.2486 | 822 | 3 | 817 | 26 | 25 | 96.1538 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 25.1673 | 16.3154 | 55.0168 | 69.5072 | 867 | 4447 | 817 | 668 | 604 | 90.4192 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002complexvar | * | 68.3069 | 62.1849 | 75.7660 | 65.1794 | 814 | 495 | 816 | 261 | 254 | 97.3180 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e0 | * | 94.2808 | 95.2159 | 93.3638 | 89.9679 | 816 | 41 | 816 | 58 | 21 | 36.2069 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7893 | 99.0291 | 98.5507 | 71.3594 | 816 | 8 | 816 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.6079 | 98.0723 | 99.1495 | 84.7395 | 814 | 16 | 816 | 7 | 2 | 28.5714 | |