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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66501-66550 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8754 | 99.0250 | 98.7263 | 71.7769 | 5789 | 57 | 5736 | 74 | 67 | 90.5405 | |
| ckim-gatk | INDEL | I1_5 | HG002complexvar | het | 99.7716 | 99.6866 | 99.8566 | 58.0913 | 18132 | 57 | 18110 | 26 | 13 | 50.0000 | |
| eyeh-varpipe | SNP | * | map_l125_m0_e0 | het | 97.2776 | 99.5499 | 95.1068 | 80.0626 | 12607 | 57 | 12245 | 630 | 17 | 2.6984 | |
| gduggal-bwavard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.4522 | 95.3431 | 99.6567 | 58.4374 | 1167 | 57 | 1161 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 22.6415 | 13.6364 | 66.6667 | 53.8462 | 9 | 57 | 12 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.4286 | 91.2173 | 91.6409 | 57.2469 | 592 | 57 | 592 | 54 | 52 | 96.2963 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.0370 | 96.2351 | 76.1733 | 88.6760 | 1457 | 57 | 1477 | 462 | 66 | 14.2857 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9487 | 98.5441 | 99.3567 | 82.1497 | 3858 | 57 | 3861 | 25 | 16 | 64.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m0_e0 | het | 96.5356 | 96.2151 | 96.8583 | 93.6158 | 1449 | 57 | 1449 | 47 | 13 | 27.6596 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 90.8367 | 84.7594 | 97.8528 | 60.4848 | 317 | 57 | 319 | 7 | 7 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002complexvar | homalt | 87.5090 | 81.5534 | 94.4030 | 66.1616 | 252 | 57 | 253 | 15 | 14 | 93.3333 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 66.7081 | 53.2787 | 89.1892 | 86.8093 | 65 | 57 | 66 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | homalt | 78.8406 | 82.6748 | 75.3463 | 87.5988 | 272 | 57 | 272 | 89 | 78 | 87.6404 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6590 | 71.5000 | 97.9452 | 72.2960 | 143 | 57 | 143 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 35.9551 | 21.9178 | 100.0000 | 84.8780 | 16 | 57 | 31 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | map_siren | hetalt | 65.0004 | 49.1071 | 96.1039 | 90.3266 | 55 | 57 | 74 | 3 | 2 | 66.6667 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | homalt | 98.2808 | 96.7833 | 99.8254 | 89.5879 | 1715 | 57 | 1715 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 57 | 0 | 0 | 0 | |||
| ltrigg-rtg2 | INDEL | * | map_l125_m2_e0 | het | 97.4100 | 95.9022 | 98.9660 | 80.9349 | 1334 | 57 | 1340 | 14 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m2_e1 | het | 97.3719 | 95.9517 | 98.8347 | 81.0855 | 1351 | 57 | 1357 | 16 | 0 | 0.0000 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | * | 97.5483 | 95.8394 | 99.3192 | 90.4686 | 1313 | 57 | 1313 | 9 | 7 | 77.7778 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6356 | 99.6862 | 97.6069 | 67.4063 | 18109 | 57 | 18109 | 444 | 421 | 94.8198 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2295 | 95.0044 | 97.4865 | 79.8699 | 1084 | 57 | 1086 | 28 | 18 | 64.2857 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4634 | 89.3657 | 97.9550 | 62.9826 | 479 | 57 | 479 | 10 | 9 | 90.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.3451 | 99.1719 | 99.5189 | 81.7458 | 6826 | 57 | 6826 | 33 | 11 | 33.3333 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m0_e0 | het | 94.4773 | 90.2896 | 99.0724 | 78.4572 | 530 | 57 | 534 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | hetalt | 97.7751 | 95.7840 | 99.8506 | 73.3373 | 1295 | 57 | 1337 | 2 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.1080 | 90.6710 | 91.5493 | 68.5493 | 554 | 57 | 520 | 48 | 46 | 95.8333 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0975 | 98.5381 | 99.6632 | 66.5047 | 3842 | 57 | 3847 | 13 | 7 | 53.8462 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.8866 | 96.2401 | 99.5904 | 67.7099 | 1459 | 57 | 1459 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | INDEL | D1_5 | * | homalt | 99.8825 | 99.8835 | 99.8815 | 58.1721 | 48869 | 57 | 48874 | 58 | 56 | 96.5517 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8868 | 97.0512 | 98.7368 | 59.9494 | 1876 | 57 | 1876 | 24 | 23 | 95.8333 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8619 | 95.7143 | 94.0246 | 80.9444 | 1273 | 57 | 1070 | 68 | 57 | 83.8235 | |
| ndellapenna-hhga | SNP | ti | map_l250_m0_e0 | * | 97.5483 | 95.8394 | 99.3192 | 91.9956 | 1313 | 57 | 1313 | 9 | 4 | 44.4444 | |
| qzeng-custom | INDEL | * | map_l250_m1_e0 | het | 77.2075 | 70.0000 | 86.0697 | 98.2587 | 133 | 57 | 173 | 28 | 15 | 53.5714 | |
| qzeng-custom | INDEL | D16_PLUS | HG002complexvar | hetalt | 0.0000 | 76.9231 | 0.0000 | 0.0000 | 190 | 57 | 0 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.4888 | 88.3197 | 99.3007 | 60.7143 | 431 | 57 | 426 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5532 | 95.7934 | 99.3789 | 69.8925 | 1298 | 57 | 1280 | 8 | 3 | 37.5000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1689 | 98.4332 | 99.9157 | 48.1800 | 3581 | 57 | 3556 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 90.6735 | 97.5949 | 84.6689 | 62.9273 | 2313 | 57 | 2314 | 419 | 412 | 98.3294 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.5502 | 97.0814 | 81.3973 | 49.1056 | 1896 | 57 | 1899 | 434 | 426 | 98.1567 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 49.2700 | 33.7209 | 91.4286 | 84.0909 | 29 | 57 | 32 | 3 | 2 | 66.6667 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6770 | 98.5789 | 98.7753 | 48.4673 | 3954 | 57 | 3952 | 49 | 32 | 65.3061 | |
| ltrigg-rtg2 | SNP | ti | segdup | het | 98.8445 | 99.5262 | 98.1721 | 86.1250 | 11973 | 57 | 11977 | 223 | 1 | 0.4484 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 79.1393 | 65.8683 | 99.1071 | 71.1340 | 110 | 57 | 111 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e1 | homalt | 94.3455 | 90.8065 | 98.1716 | 76.0928 | 563 | 57 | 698 | 13 | 12 | 92.3077 | |