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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21201-21250 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.0227 | 98.3645 | 82.9851 | 68.6916 | 842 | 14 | 834 | 171 | 169 | 98.8304 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m2_e0 | het | 95.3640 | 91.9426 | 99.0499 | 82.6284 | 833 | 73 | 834 | 8 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 88.3369 | 79.4872 | 99.4041 | 37.5744 | 775 | 200 | 834 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.8851 | 96.3010 | 99.5221 | 33.9384 | 755 | 29 | 833 | 4 | 4 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.2073 | 98.2477 | 83.3834 | 68.6441 | 841 | 15 | 833 | 166 | 164 | 98.7952 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9006 | 91.1550 | 92.6585 | 71.5146 | 876 | 85 | 833 | 66 | 61 | 92.4242 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.8851 | 96.3010 | 99.5221 | 33.7816 | 755 | 29 | 833 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | HG002compoundhet | het | 89.8182 | 98.2477 | 82.7210 | 68.4623 | 841 | 15 | 833 | 174 | 172 | 98.8506 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m2_e1 | * | 96.8730 | 96.4368 | 97.3131 | 86.4514 | 839 | 31 | 833 | 23 | 6 | 26.0870 | |
| ciseli-custom | INDEL | * | map_l150_m2_e0 | * | 65.2883 | 59.0199 | 73.0465 | 93.1719 | 831 | 577 | 832 | 307 | 191 | 62.2150 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7528 | 96.0459 | 99.5215 | 32.8514 | 753 | 31 | 832 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7528 | 96.0459 | 99.5215 | 32.8514 | 753 | 31 | 832 | 4 | 4 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | HG002compoundhet | * | 10.9462 | 9.3899 | 13.1210 | 37.7051 | 848 | 8183 | 832 | 5509 | 5456 | 99.0379 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.3984 | 95.9444 | 96.8568 | 59.7281 | 828 | 35 | 832 | 27 | 25 | 92.5926 | |
| qzeng-custom | SNP | * | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| qzeng-custom | SNP | tv | * | hetalt | 98.2537 | 97.2445 | 99.2840 | 55.4492 | 847 | 24 | 832 | 6 | 5 | 83.3333 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 90.9078 | 83.8350 | 99.2840 | 42.0470 | 752 | 145 | 832 | 6 | 5 | 83.3333 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002compoundhet | het | 89.1342 | 98.1308 | 81.6487 | 68.8379 | 840 | 16 | 832 | 187 | 185 | 98.9305 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e1 | * | 97.4288 | 95.8621 | 99.0476 | 82.9442 | 834 | 36 | 832 | 8 | 1 | 12.5000 | |
| jmaeng-gatk | INDEL | D6_15 | HG002compoundhet | het | 88.9799 | 98.0140 | 81.4706 | 68.2342 | 839 | 17 | 831 | 189 | 187 | 98.9418 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.9602 | 93.1759 | 92.7455 | 64.5850 | 710 | 52 | 831 | 65 | 47 | 72.3077 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.1183 | 98.3683 | 99.8798 | 44.5703 | 844 | 14 | 831 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 67.4784 | 54.4914 | 88.5928 | 95.0381 | 825 | 689 | 831 | 107 | 16 | 14.9533 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e1 | homalt | 46.8732 | 30.6107 | 100.0000 | 95.5861 | 832 | 1886 | 831 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 49.3741 | 54.9918 | 44.7978 | 36.5595 | 336 | 275 | 831 | 1024 | 846 | 82.6172 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 72.1995 | 97.7700 | 57.2314 | 91.8059 | 833 | 19 | 831 | 621 | 50 | 8.0515 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 49.8073 | 85.3306 | 35.1672 | 63.7131 | 826 | 142 | 831 | 1532 | 1487 | 97.0627 | |
| rpoplin-dv42 | INDEL | * | map_l150_m1_e0 | het | 97.5275 | 96.7251 | 98.3432 | 88.8109 | 827 | 28 | 831 | 14 | 5 | 35.7143 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.6249 | 85.0636 | 99.2832 | 28.0928 | 803 | 141 | 831 | 6 | 6 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002compoundhet | het | 89.9917 | 98.0140 | 83.1832 | 68.8202 | 839 | 17 | 831 | 168 | 166 | 98.8095 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9908 | 72.0050 | 92.5390 | 89.7242 | 571 | 222 | 831 | 67 | 13 | 19.4030 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m0_e0 | * | 97.7664 | 96.4079 | 99.1637 | 75.6190 | 832 | 31 | 830 | 7 | 1 | 14.2857 | |
| rpoplin-dv42 | SNP | tv | map_l250_m1_e0 | homalt | 98.2249 | 96.9626 | 99.5204 | 86.9197 | 830 | 26 | 830 | 4 | 4 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 72.7873 | 95.7746 | 58.6987 | 85.9415 | 816 | 36 | 830 | 584 | 143 | 24.4863 | |
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | het | 95.5765 | 97.8972 | 93.3633 | 64.0953 | 838 | 18 | 830 | 59 | 57 | 96.6102 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 84.4600 | 82.3881 | 86.6388 | 62.5342 | 828 | 177 | 830 | 128 | 125 | 97.6562 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | homalt | 33.4408 | 20.0774 | 100.0000 | 92.6353 | 830 | 3304 | 830 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D16_PLUS | HG002complexvar | het | 97.1610 | 96.5673 | 97.7621 | 69.4274 | 1069 | 38 | 830 | 19 | 9 | 47.3684 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.9472 | 94.6281 | 97.3036 | 80.6048 | 916 | 52 | 830 | 23 | 15 | 65.2174 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 76.8250 | 72.2660 | 81.9980 | 90.9083 | 826 | 317 | 829 | 182 | 82 | 45.0549 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.7997 | 96.7251 | 66.4796 | 66.7555 | 827 | 28 | 829 | 418 | 3 | 0.7177 | |
| gduggal-bwaplat | SNP | tv | map_l125_m0_e0 | homalt | 54.3607 | 37.3255 | 100.0000 | 86.5727 | 829 | 1392 | 829 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 88.0250 | 87.1204 | 88.9485 | 79.8268 | 832 | 123 | 829 | 103 | 98 | 95.1456 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e1 | * | 94.3117 | 95.2874 | 93.3559 | 90.0716 | 829 | 41 | 829 | 59 | 21 | 35.5932 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m0_e0 | * | 95.2850 | 95.9444 | 94.6347 | 84.6424 | 828 | 35 | 829 | 47 | 8 | 17.0213 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6197 | 95.7908 | 99.5198 | 33.5726 | 751 | 33 | 829 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | * | * | hetalt | 97.4148 | 95.1780 | 99.7593 | 54.6645 | 829 | 42 | 829 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | * | hetalt | 97.4148 | 95.1780 | 99.7593 | 54.6645 | 829 | 42 | 829 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l250_m1_e0 | het | 63.1820 | 46.3346 | 99.2806 | 91.7792 | 828 | 959 | 828 | 6 | 1 | 16.6667 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 84.4037 | 73.2095 | 99.6390 | 55.5377 | 828 | 303 | 828 | 3 | 3 | 100.0000 | |