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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10901-10950 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.8438 | 95.8592 | 97.8488 | 71.3186 | 4792 | 207 | 4776 | 105 | 68 | 64.7619 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.8438 | 95.8592 | 97.8488 | 71.3186 | 4792 | 207 | 4776 | 105 | 68 | 64.7619 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e1 | * | 94.5649 | 94.0898 | 95.0448 | 89.7593 | 4776 | 300 | 4776 | 249 | 130 | 52.2088 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9803 | 95.8192 | 98.1699 | 71.2843 | 4790 | 209 | 4774 | 89 | 69 | 77.5281 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9803 | 95.8192 | 98.1699 | 71.2843 | 4790 | 209 | 4774 | 89 | 69 | 77.5281 | |
| qzeng-custom | SNP | ti | map_l150_m1_e0 | homalt | 79.2986 | 65.9888 | 99.3340 | 70.0903 | 4835 | 2492 | 4773 | 32 | 32 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| mlin-fermikit | INDEL | I6_15 | HG002compoundhet | hetalt | 71.1432 | 55.4293 | 99.2920 | 28.6902 | 4732 | 3805 | 4768 | 34 | 34 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.2293 | 98.4908 | 99.9790 | 69.4708 | 4764 | 73 | 4764 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.6684 | 95.5791 | 97.7828 | 72.0972 | 4778 | 221 | 4763 | 108 | 70 | 64.8148 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.7782 | 98.2578 | 97.3034 | 68.5775 | 4681 | 83 | 4763 | 132 | 5 | 3.7879 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.0249 | 90.0274 | 86.1096 | 53.5183 | 5263 | 583 | 4761 | 768 | 648 | 84.3750 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.0249 | 90.0274 | 86.1096 | 53.5183 | 5263 | 583 | 4761 | 768 | 648 | 84.3750 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m2_e0 | * | 97.3703 | 95.0080 | 99.8532 | 81.1041 | 4758 | 250 | 4761 | 7 | 4 | 57.1429 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.5003 | 95.5391 | 97.4811 | 71.7827 | 4776 | 223 | 4760 | 123 | 101 | 82.1138 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.5003 | 95.5391 | 97.4811 | 71.7827 | 4776 | 223 | 4760 | 123 | 101 | 82.1138 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | * | 95.5047 | 95.0280 | 95.9863 | 91.4473 | 4759 | 249 | 4759 | 199 | 57 | 28.6432 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 73.0180 | 70.7114 | 75.4801 | 45.1896 | 4761 | 1972 | 4756 | 1545 | 1527 | 98.8350 | |
| ckim-dragen | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7380 | 98.1108 | 99.3732 | 66.6039 | 4674 | 90 | 4756 | 30 | 7 | 23.3333 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 84.9692 | 75.8339 | 96.6071 | 82.4013 | 4729 | 1507 | 4755 | 167 | 52 | 31.1377 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.7253 | 89.2979 | 77.0540 | 68.9962 | 4464 | 535 | 4755 | 1416 | 413 | 29.1667 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.7253 | 89.2979 | 77.0540 | 68.9962 | 4464 | 535 | 4755 | 1416 | 413 | 29.1667 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 89.5968 | 97.3744 | 82.9698 | 74.5108 | 4710 | 127 | 4755 | 976 | 140 | 14.3443 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 60.4452 | 67.0715 | 55.0104 | 41.9298 | 2982 | 1464 | 4754 | 3888 | 3114 | 80.0926 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 79.6677 | 66.2895 | 99.8110 | 27.4375 | 4804 | 2443 | 4754 | 9 | 9 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l100_m1_e0 | homalt | 68.8845 | 52.5489 | 99.9579 | 57.4205 | 4752 | 4291 | 4752 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.4186 | 95.3591 | 95.4783 | 74.6523 | 4767 | 232 | 4751 | 225 | 163 | 72.4444 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.4186 | 95.3591 | 95.4783 | 74.6523 | 4767 | 232 | 4751 | 225 | 163 | 72.4444 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.1706 | 97.3744 | 91.1708 | 74.9459 | 4710 | 127 | 4750 | 460 | 136 | 29.5652 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 98.6787 | 97.6320 | 99.7480 | 46.7338 | 4659 | 113 | 4750 | 12 | 12 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0407 | 99.9158 | 98.1807 | 50.4457 | 4749 | 4 | 4749 | 88 | 87 | 98.8636 | |
| ckim-vqsr | SNP | tv | map_l150_m2_e1 | het | 77.9198 | 64.6434 | 98.0591 | 92.2018 | 4750 | 2598 | 4749 | 94 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0820 | 99.9158 | 98.2619 | 50.9937 | 4749 | 4 | 4749 | 84 | 83 | 98.8095 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4971 | 99.8738 | 99.1234 | 45.0258 | 4747 | 6 | 4749 | 42 | 40 | 95.2381 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5576 | 99.9158 | 97.2359 | 49.7376 | 4749 | 4 | 4749 | 135 | 134 | 99.2593 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0508 | 99.8948 | 98.2209 | 50.1958 | 4748 | 5 | 4748 | 86 | 85 | 98.8372 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8446 | 99.8948 | 97.8162 | 47.4789 | 4748 | 5 | 4748 | 106 | 105 | 99.0566 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0301 | 99.8948 | 98.1803 | 50.4508 | 4748 | 5 | 4748 | 88 | 87 | 98.8636 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9267 | 99.8738 | 97.9975 | 50.0103 | 4747 | 6 | 4747 | 97 | 96 | 98.9691 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | * | 97.5496 | 96.4942 | 98.6284 | 54.8042 | 4624 | 168 | 4746 | 66 | 60 | 90.9091 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 61.3756 | 98.2368 | 44.6294 | 77.5231 | 4680 | 84 | 4745 | 5887 | 84 | 1.4269 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.9356 | 99.8106 | 96.1297 | 54.5329 | 4744 | 9 | 4744 | 191 | 190 | 99.4764 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.0972 | 99.7896 | 96.4613 | 40.7376 | 4743 | 10 | 4743 | 174 | 174 | 100.0000 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | het | 61.6520 | 44.9730 | 97.9955 | 67.0300 | 4746 | 5807 | 4742 | 97 | 1 | 1.0309 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0758 | 97.7052 | 94.4998 | 74.6425 | 4726 | 111 | 4742 | 276 | 80 | 28.9855 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 51.3203 | 40.1741 | 71.0262 | 37.0164 | 969 | 1443 | 4741 | 1934 | 1923 | 99.4312 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5170 | 99.7054 | 99.3293 | 39.8437 | 4739 | 14 | 4739 | 32 | 32 | 100.0000 | |