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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75701-75750 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 68.4924 | 85.2853 | 57.2248 | 41.5985 | 1136 | 196 | 5390 | 4029 | 3815 | 94.6885 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | * | 44.4193 | 40.7689 | 48.7878 | 63.5182 | 5037 | 7318 | 5393 | 5661 | 4783 | 84.4904 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6673 | 99.4468 | 99.8889 | 71.7685 | 5393 | 30 | 5393 | 6 | 6 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.5120 | 87.0957 | 98.6467 | 70.2422 | 5386 | 798 | 5394 | 74 | 11 | 14.8649 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 38.5774 | 33.9720 | 44.6273 | 63.2598 | 3422 | 6651 | 5395 | 6694 | 4337 | 64.7894 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4416 | 99.2346 | 99.6494 | 43.8167 | 3630 | 28 | 5401 | 19 | 13 | 68.4211 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9390 | 64.2764 | 95.8149 | 73.3607 | 5405 | 3004 | 5403 | 236 | 65 | 27.5424 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7876 | 99.6312 | 99.9445 | 71.5069 | 5403 | 20 | 5403 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7876 | 99.6312 | 99.9445 | 71.5069 | 5403 | 20 | 5403 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.3614 | 99.5206 | 93.3967 | 80.5951 | 5397 | 26 | 5403 | 382 | 170 | 44.5026 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.3614 | 99.5206 | 93.3967 | 80.5951 | 5397 | 26 | 5403 | 382 | 170 | 44.5026 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8061 | 99.6496 | 99.9630 | 75.1151 | 5404 | 19 | 5404 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8061 | 99.6496 | 99.9630 | 75.1151 | 5404 | 19 | 5404 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.8112 | 94.2777 | 99.4846 | 58.4823 | 5404 | 328 | 5405 | 28 | 21 | 75.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7785 | 99.6681 | 99.8891 | 70.9180 | 5405 | 18 | 5405 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7785 | 99.6681 | 99.8891 | 70.9180 | 5405 | 18 | 5405 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.2176 | 99.5759 | 93.0785 | 81.7232 | 5400 | 23 | 5406 | 402 | 172 | 42.7861 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.2176 | 99.5759 | 93.0785 | 81.7232 | 5400 | 23 | 5406 | 402 | 172 | 42.7861 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8338 | 99.7050 | 99.9630 | 71.6940 | 5407 | 16 | 5407 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8338 | 99.7050 | 99.9630 | 71.6940 | 5407 | 16 | 5407 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7694 | 99.7050 | 99.8338 | 75.7174 | 5407 | 16 | 5407 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7694 | 99.7050 | 99.8338 | 75.7174 | 5407 | 16 | 5407 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8432 | 99.7787 | 99.9077 | 76.2675 | 5411 | 12 | 5411 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8432 | 99.7787 | 99.9077 | 76.2675 | 5411 | 12 | 5411 | 5 | 3 | 60.0000 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | * | 48.1810 | 42.2143 | 56.1120 | 77.8637 | 5216 | 7140 | 5412 | 4233 | 851 | 20.1039 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.8036 | 94.8601 | 96.7661 | 44.2918 | 5389 | 292 | 5416 | 181 | 176 | 97.2376 | |
| egarrison-hhga | INDEL | D16_PLUS | * | * | 85.6324 | 79.0831 | 93.3644 | 63.5644 | 5365 | 1419 | 5417 | 385 | 330 | 85.7143 | |
| ckim-gatk | SNP | tv | map_l150_m2_e0 | het | 83.9328 | 74.7380 | 95.7075 | 90.8782 | 5420 | 1832 | 5418 | 243 | 8 | 3.2922 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5837 | 99.2071 | 99.9631 | 70.9548 | 5380 | 43 | 5419 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5837 | 99.2071 | 99.9631 | 70.9548 | 5380 | 43 | 5419 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1082 | 88.4268 | 98.3131 | 60.7196 | 5379 | 704 | 5420 | 93 | 64 | 68.8172 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | homalt | 47.2295 | 30.9206 | 99.9447 | 86.7543 | 5421 | 12111 | 5421 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e1 | homalt | 73.6570 | 58.2993 | 100.0000 | 74.6090 | 5423 | 3879 | 5422 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3994 | 95.4409 | 95.3578 | 49.7393 | 5422 | 259 | 5423 | 264 | 128 | 48.4848 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5758 | 99.3915 | 99.7609 | 70.9351 | 5390 | 33 | 5423 | 13 | 4 | 30.7692 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5758 | 99.3915 | 99.7609 | 70.9351 | 5390 | 33 | 5423 | 13 | 4 | 30.7692 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.7727 | 95.5114 | 96.0354 | 50.6248 | 5426 | 255 | 5426 | 224 | 95 | 42.4107 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.9814 | 98.5171 | 99.4501 | 63.2766 | 5514 | 83 | 5426 | 30 | 9 | 30.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1541 | 94.6964 | 99.7428 | 58.3391 | 5428 | 304 | 5429 | 14 | 11 | 78.5714 | |
| qzeng-custom | SNP | ti | HG002compoundhet | homalt | 98.8966 | 98.7963 | 98.9971 | 38.0829 | 7305 | 89 | 5429 | 55 | 41 | 74.5455 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6218 | 99.4099 | 99.8345 | 72.5123 | 5391 | 32 | 5430 | 9 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6218 | 99.4099 | 99.8345 | 72.5123 | 5391 | 32 | 5430 | 9 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1986 | 94.7313 | 99.7979 | 56.1836 | 5430 | 302 | 5431 | 11 | 9 | 81.8182 | |