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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74651-74700 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 92.3366 | 91.0042 | 93.7086 | 71.1832 | 435 | 43 | 566 | 38 | 38 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 16.6415 | 14.6667 | 19.2308 | 69.7674 | 11 | 64 | 10 | 42 | 38 | 90.4762 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 31.3390 | 84.6154 | 19.2308 | 69.2308 | 11 | 2 | 10 | 42 | 38 | 90.4762 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002compoundhet | homalt | 93.1153 | 98.9691 | 87.9154 | 78.3801 | 288 | 3 | 291 | 40 | 38 | 95.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.9410 | 92.7025 | 99.4141 | 25.1041 | 6593 | 519 | 6617 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.9098 | 92.6401 | 99.4187 | 25.8018 | 6646 | 528 | 6670 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8633 | 99.8472 | 99.8795 | 59.6020 | 55546 | 85 | 55530 | 67 | 38 | 56.7164 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e0 | homalt | 99.5066 | 99.2403 | 99.7743 | 69.1861 | 17243 | 132 | 17243 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e1 | homalt | 99.5110 | 99.2471 | 99.7764 | 69.2363 | 17400 | 132 | 17400 | 39 | 38 | 97.4359 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | * | 98.5375 | 98.2270 | 98.8501 | 88.3448 | 4986 | 90 | 4986 | 58 | 38 | 65.5172 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0294 | 99.2360 | 96.8517 | 72.5744 | 1169 | 9 | 1169 | 38 | 38 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m0_e0 | het | 97.9824 | 98.2413 | 97.7249 | 78.7694 | 2793 | 50 | 2792 | 65 | 38 | 58.4615 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8401 | 94.6563 | 99.1270 | 30.3647 | 4517 | 255 | 4542 | 40 | 38 | 95.0000 | |
| egarrison-hhga | SNP | ti | map_siren | het | 99.5580 | 99.2867 | 99.8308 | 53.2460 | 61937 | 445 | 61938 | 105 | 38 | 36.1905 | |
| eyeh-varpipe | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 92.9054 | 91.8495 | 0 | 0 | 825 | 63 | 38 | 60.3175 | |
| eyeh-varpipe | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 93.9636 | 77.8451 | 0 | 0 | 825 | 53 | 38 | 71.6981 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.2606 | 98.3425 | 85.1301 | 84.6110 | 356 | 6 | 229 | 40 | 38 | 95.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.6885 | 100.0000 | 64.8649 | 84.3441 | 169 | 0 | 72 | 39 | 38 | 97.4359 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7887 | 96.0736 | 99.5661 | 64.7766 | 8931 | 365 | 8950 | 39 | 38 | 97.4359 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.1244 | 94.8753 | 99.4828 | 30.2426 | 7646 | 413 | 7694 | 40 | 38 | 95.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.1244 | 94.8753 | 99.4828 | 30.2426 | 7646 | 413 | 7694 | 40 | 38 | 95.0000 | |
| ckim-isaac | INDEL | D16_PLUS | * | hetalt | 85.5821 | 76.2545 | 97.5097 | 48.2976 | 1474 | 459 | 1762 | 45 | 38 | 84.4444 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 81.6457 | 73.4098 | 91.9631 | 60.0526 | 704 | 255 | 698 | 61 | 38 | 62.2951 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 84.0119 | 76.3636 | 93.3628 | 58.1998 | 630 | 195 | 633 | 45 | 38 | 84.4444 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1068 | 94.7612 | 99.5714 | 64.0076 | 8809 | 487 | 8828 | 38 | 38 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8550 | 94.3417 | 99.5058 | 29.2966 | 7603 | 456 | 7651 | 38 | 38 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8550 | 94.3417 | 99.5058 | 29.2966 | 7603 | 456 | 7651 | 38 | 38 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | HG002complexvar | homalt | 98.4178 | 99.9176 | 96.9624 | 55.5753 | 1213 | 1 | 1213 | 38 | 38 | 100.0000 | |
| ckim-vqsr | SNP | ti | HG002complexvar | * | 98.8535 | 97.7474 | 99.9849 | 18.1351 | 496983 | 11453 | 496925 | 75 | 38 | 50.6667 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | homalt | 89.8612 | 94.8097 | 85.4037 | 66.1053 | 274 | 15 | 275 | 47 | 38 | 80.8511 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 63.4351 | 46.7851 | 98.4838 | 42.8226 | 3187 | 3625 | 2793 | 43 | 38 | 88.3721 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002compoundhet | het | 50.9653 | 70.2128 | 40.0000 | 86.0681 | 33 | 14 | 36 | 54 | 38 | 70.3704 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 84.0119 | 76.3636 | 93.3628 | 58.1998 | 630 | 195 | 633 | 45 | 38 | 84.4444 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0495 | 96.4138 | 99.7416 | 53.4125 | 16561 | 616 | 16599 | 43 | 38 | 88.3721 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8827 | 94.2729 | 99.6411 | 27.0328 | 10469 | 636 | 10551 | 38 | 38 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.2861 | 96.5348 | 98.0492 | 68.8578 | 2563 | 92 | 2513 | 50 | 38 | 76.0000 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | * | 99.7285 | 99.6044 | 99.8530 | 57.2674 | 33231 | 132 | 33279 | 49 | 38 | 77.5510 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5725 | 99.8788 | 95.3704 | 71.8658 | 824 | 1 | 824 | 40 | 38 | 95.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5725 | 99.8788 | 95.3704 | 71.8658 | 824 | 1 | 824 | 40 | 38 | 95.0000 | |
| dgrover-gatk | SNP | ti | map_l100_m1_e0 | het | 99.4173 | 99.4423 | 99.3923 | 69.6868 | 29775 | 167 | 29768 | 182 | 38 | 20.8791 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7103 | 95.9230 | 99.5655 | 64.4709 | 8917 | 379 | 8936 | 39 | 38 | 97.4359 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.0717 | 94.7636 | 99.4951 | 30.0679 | 7637 | 422 | 7685 | 39 | 38 | 97.4359 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.0717 | 94.7636 | 99.4951 | 30.0679 | 7637 | 422 | 7685 | 39 | 38 | 97.4359 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.6303 | 99.8788 | 95.4809 | 71.6678 | 824 | 1 | 824 | 39 | 38 | 97.4359 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.6303 | 99.8788 | 95.4809 | 71.6678 | 824 | 1 | 824 | 39 | 38 | 97.4359 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.6140 | 98.9214 | 94.4118 | 67.8183 | 642 | 7 | 642 | 38 | 38 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7097 | 96.3304 | 99.1289 | 64.0826 | 5119 | 195 | 5121 | 45 | 38 | 84.4444 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3822 | 94.2153 | 98.6511 | 52.7880 | 3290 | 202 | 3291 | 45 | 38 | 84.4444 | |
| bgallagher-sentieon | SNP | ti | map_l100_m1_e0 | het | 99.2799 | 99.4757 | 99.0849 | 68.0556 | 29785 | 157 | 29778 | 275 | 38 | 13.8182 | |
| bgallagher-sentieon | SNP | ti | map_l100_m2_e0 | het | 99.2634 | 99.4775 | 99.0503 | 69.3746 | 30462 | 160 | 30455 | 292 | 38 | 13.0137 | |