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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79801-79850 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 57.0537 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 57.0537 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 57.2671 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 56.1224 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 57.3201 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8544 | 100.0000 | 99.7093 | 55.8974 | 343 | 0 | 343 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e0 | homalt | 99.8546 | 99.8365 | 99.8728 | 63.2901 | 27478 | 45 | 27478 | 35 | 17 | 48.5714 | |
| egarrison-hhga | SNP | tv | * | het | 99.8548 | 99.7659 | 99.9438 | 20.8578 | 590311 | 1385 | 590332 | 332 | 44 | 13.2530 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m2_e1 | homalt | 99.8548 | 99.7850 | 99.9246 | 63.4100 | 9282 | 20 | 9281 | 7 | 4 | 57.1429 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | homalt | 99.8549 | 99.8602 | 99.8495 | 64.9261 | 9289 | 13 | 9289 | 14 | 5 | 35.7143 | |
| hfeng-pmm1 | SNP | tv | map_l100_m2_e1 | homalt | 99.8549 | 99.8495 | 99.8602 | 64.8422 | 9288 | 14 | 9288 | 13 | 5 | 38.4615 | |
| dgrover-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.8552 | 99.7933 | 99.9172 | 69.3872 | 4827 | 10 | 4827 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8553 | 100.0000 | 99.7110 | 78.9538 | 346 | 0 | 345 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8553 | 99.7110 | 100.0000 | 75.3957 | 345 | 1 | 342 | 0 | 0 | ||
| eyeh-varpipe | SNP | * | map_l125_m2_e1 | homalt | 99.8554 | 99.8175 | 99.8934 | 71.0933 | 17500 | 32 | 16871 | 18 | 10 | 55.5556 | |
| ndellapenna-hhga | SNP | * | * | het | 99.8554 | 99.7670 | 99.9441 | 18.2036 | 1869221 | 4366 | 1869241 | 1046 | 128 | 12.2371 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8555 | 99.7467 | 99.9646 | 71.3411 | 16932 | 43 | 16932 | 6 | 3 | 50.0000 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8555 | 99.7467 | 99.9646 | 71.3411 | 16932 | 43 | 16932 | 6 | 3 | 50.0000 | |
| hfeng-pmm1 | SNP | * | map_l100_m1_e0 | homalt | 99.8556 | 99.8408 | 99.8703 | 60.9594 | 26960 | 43 | 26960 | 35 | 17 | 48.5714 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.0206 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 78.4739 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 78.8544 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | map_siren | homalt | 99.8557 | 99.7571 | 99.9546 | 50.5157 | 55022 | 134 | 55010 | 25 | 22 | 88.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | * | HG002complexvar | * | 99.8557 | 99.8989 | 99.8126 | 18.3366 | 753622 | 763 | 699806 | 1314 | 293 | 22.2983 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.1717 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.1842 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | * | map_siren | homalt | 99.8557 | 99.7643 | 99.9473 | 50.0857 | 55026 | 130 | 55017 | 29 | 25 | 86.2069 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2588 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.8558 | 99.8558 | 99.8558 | 64.1880 | 1385 | 2 | 1385 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.8560 | 99.8560 | 99.8559 | 61.0125 | 35368 | 51 | 35352 | 51 | 31 | 60.7843 | |
| hfeng-pmm3 | SNP | * | map_l100_m2_e1 | homalt | 99.8561 | 99.8381 | 99.8740 | 63.2761 | 27751 | 45 | 27751 | 35 | 17 | 48.5714 | |
| ltrigg-rtg1 | SNP | tv | map_l100_m1_e0 | homalt | 99.8561 | 99.7899 | 99.9225 | 60.9412 | 9024 | 19 | 9023 | 7 | 4 | 57.1429 | |
| jli-custom | SNP | ti | map_siren | homalt | 99.8561 | 99.7521 | 99.9604 | 48.6440 | 37822 | 94 | 37819 | 15 | 15 | 100.0000 | |
| jli-custom | SNP | tv | * | het | 99.8561 | 99.9410 | 99.7714 | 21.8920 | 591347 | 349 | 591292 | 1355 | 58 | 4.2804 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8562 | 99.7624 | 99.9502 | 47.5635 | 20151 | 48 | 20069 | 10 | 7 | 70.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8565 | 99.9202 | 99.7929 | 46.2638 | 6263 | 5 | 6265 | 13 | 5 | 38.4615 | |
| jli-custom | SNP | * | func_cds | het | 99.8568 | 99.9552 | 99.7586 | 24.6835 | 11156 | 5 | 11156 | 27 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | * | func_cds | homalt | 99.8569 | 99.9570 | 99.7569 | 23.2466 | 6976 | 3 | 6976 | 17 | 12 | 70.5882 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8570 | 99.8412 | 99.8729 | 71.3127 | 3143 | 5 | 3143 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8574 | 99.7720 | 99.9429 | 62.6048 | 7003 | 16 | 6999 | 4 | 1 | 25.0000 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | * | 99.8576 | 99.7315 | 99.9841 | 21.7544 | 245491 | 661 | 245404 | 39 | 15 | 38.4615 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8578 | 99.8307 | 99.8849 | 56.2250 | 14745 | 25 | 14747 | 17 | 4 | 23.5294 | |
| egarrison-hhga | SNP | ti | map_l100_m1_e0 | homalt | 99.8579 | 99.7829 | 99.9331 | 60.2302 | 17921 | 39 | 17921 | 12 | 12 | 100.0000 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e0 | homalt | 99.8579 | 99.7870 | 99.9289 | 62.7872 | 18270 | 39 | 18270 | 13 | 13 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l100_m1_e0 | homalt | 99.8580 | 99.8385 | 99.8775 | 60.1505 | 17931 | 29 | 17931 | 22 | 12 | 54.5455 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8581 | 99.7937 | 99.9225 | 58.9725 | 3870 | 8 | 3870 | 3 | 1 | 33.3333 | |