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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32401-32450 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.7339 | 69.2913 | 96.7033 | 44.5122 | 88 | 39 | 88 | 3 | 2 | 66.6667 | |
| egarrison-hhga | INDEL | D6_15 | segdup | het | 94.7244 | 95.6522 | 93.8144 | 94.1033 | 88 | 4 | 91 | 6 | 6 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.1358 | 70.1613 | 80.8696 | 87.6477 | 87 | 37 | 93 | 22 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3051 | 100.0000 | 96.6667 | 85.6688 | 87 | 0 | 87 | 3 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | I6_15 | map_siren | homalt | 95.0820 | 96.6667 | 93.5484 | 80.3383 | 87 | 3 | 87 | 6 | 5 | 83.3333 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7528 | 100.0000 | 95.6044 | 84.5238 | 87 | 0 | 87 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.9412 | 91.5789 | 96.4286 | 90.1869 | 87 | 8 | 81 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4286 | 100.0000 | 98.8636 | 81.1159 | 87 | 0 | 87 | 1 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | segdup | het | 96.1326 | 94.5652 | 97.7528 | 94.0067 | 87 | 5 | 87 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.9412 | 91.5789 | 96.4286 | 90.0119 | 87 | 8 | 81 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.4891 | 91.5789 | 97.5904 | 89.8284 | 87 | 8 | 81 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 100.0000 | 100.0000 | 100.0000 | 81.4499 | 87 | 0 | 87 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.1554 | 89.6907 | 90.6250 | 93.3194 | 87 | 10 | 87 | 9 | 2 | 22.2222 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m2_e0 | het | 78.7330 | 66.4122 | 96.6667 | 95.8640 | 87 | 44 | 87 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 69.3227 | 56.8627 | 88.7755 | 86.4454 | 87 | 66 | 87 | 11 | 9 | 81.8182 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 82.0755 | 69.6000 | 100.0000 | 36.4964 | 87 | 38 | 87 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 57.3067 | 82.0755 | 44.0217 | 76.7383 | 87 | 19 | 81 | 103 | 93 | 90.2913 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 72.1992 | 56.8627 | 98.8636 | 64.0816 | 87 | 66 | 87 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_siren | homalt | 97.1812 | 96.6667 | 97.7011 | 75.2841 | 87 | 3 | 85 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.1694 | 82.0755 | 88.5057 | 59.1549 | 87 | 19 | 462 | 60 | 43 | 71.6667 | |
| mlin-fermikit | INDEL | * | segdup | hetalt | 80.1843 | 66.9231 | 100.0000 | 93.8999 | 87 | 43 | 89 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | map_l125_m1_e0 | * | 77.6786 | 74.3590 | 81.3084 | 89.7706 | 87 | 30 | 87 | 20 | 19 | 95.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8636 | 100.0000 | 97.7528 | 84.9916 | 87 | 0 | 87 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_siren | homalt | 96.6288 | 96.6667 | 96.5909 | 78.8969 | 87 | 3 | 85 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.3051 | 100.0000 | 96.6667 | 84.7973 | 87 | 0 | 87 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7528 | 100.0000 | 95.6044 | 84.1463 | 87 | 0 | 87 | 4 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | homalt | 72.6272 | 75.0000 | 70.4000 | 95.6911 | 87 | 29 | 88 | 37 | 34 | 91.8919 | |
| asubramanian-gatk | INDEL | D6_15 | segdup | het | 97.2067 | 94.5652 | 100.0000 | 96.0775 | 87 | 5 | 87 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.3114 | 97.7528 | 98.8764 | 76.5789 | 87 | 2 | 88 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7528 | 100.0000 | 95.6044 | 85.2033 | 87 | 0 | 87 | 4 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.2308 | 89.6907 | 88.7755 | 92.8467 | 87 | 10 | 87 | 11 | 4 | 36.3636 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4286 | 100.0000 | 98.8636 | 79.0974 | 87 | 0 | 87 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.7528 | 100.0000 | 95.6044 | 85.5326 | 87 | 0 | 87 | 4 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 38.3260 | 42.4390 | 34.9398 | 82.2902 | 87 | 118 | 87 | 162 | 148 | 91.3580 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 38.3260 | 42.4390 | 34.9398 | 82.2902 | 87 | 118 | 87 | 162 | 148 | 91.3580 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 42.4438 | 56.8627 | 33.8583 | 68.1704 | 87 | 66 | 86 | 168 | 147 | 87.5000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8636 | 100.0000 | 97.7528 | 86.9693 | 87 | 0 | 87 | 2 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | HG002complexvar | * | 9.5470 | 5.2952 | 48.4536 | 72.9428 | 87 | 1556 | 94 | 100 | 53 | 53.0000 | |
| gduggal-snapfb | INDEL | I6_15 | HG002compoundhet | het | 56.6000 | 41.8269 | 87.5070 | 19.0965 | 87 | 121 | 4686 | 669 | 652 | 97.4589 | |
| ghariani-varprowl | INDEL | D6_15 | segdup | het | 76.9912 | 94.5652 | 64.9254 | 95.2347 | 87 | 5 | 87 | 47 | 45 | 95.7447 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 11.7728 | 84.3137 | 6.3282 | 78.4662 | 86 | 16 | 86 | 1273 | 9 | 0.7070 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 15.1142 | 85.1485 | 8.2932 | 83.7435 | 86 | 15 | 86 | 951 | 14 | 1.4721 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 15.8746 | 12.3386 | 22.2513 | 50.7732 | 86 | 611 | 85 | 297 | 292 | 98.3165 | |
| jmaeng-gatk | SNP | tv | map_l250_m0_e0 | homalt | 61.4286 | 44.5596 | 98.8506 | 96.4620 | 86 | 107 | 86 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4220 | 98.8506 | 100.0000 | 71.4777 | 86 | 1 | 83 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 56.8695 | 48.3146 | 69.1057 | 74.5868 | 86 | 92 | 85 | 38 | 38 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4220 | 98.8506 | 100.0000 | 80.7606 | 86 | 1 | 86 | 0 | 0 | ||
| jli-custom | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.5263 | 88.6598 | 92.4731 | 93.0337 | 86 | 11 | 86 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D6_15 | segdup | het | 96.6292 | 93.4783 | 100.0000 | 94.4373 | 86 | 6 | 86 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m1_e0 | het | 80.0000 | 68.2540 | 96.6292 | 95.5366 | 86 | 40 | 86 | 3 | 1 | 33.3333 | |