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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74551-74600 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | I6_15 | HG002complexvar | het | 99.2082 | 98.6412 | 99.7818 | 59.3866 | 2323 | 32 | 2286 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e0 | homalt | 99.2082 | 99.3656 | 99.0514 | 82.7233 | 1253 | 8 | 1253 | 12 | 5 | 41.6667 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2083 | 99.4128 | 99.0047 | 74.3003 | 1693 | 10 | 1691 | 17 | 5 | 29.4118 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.2085 | 99.0041 | 99.4137 | 68.4982 | 13620 | 137 | 13565 | 80 | 52 | 65.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.2085 | 99.0041 | 99.4137 | 68.4982 | 13620 | 137 | 13565 | 80 | 52 | 65.0000 | |
| asubramanian-gatk | INDEL | D1_5 | HG002complexvar | * | 99.2090 | 98.6948 | 99.7287 | 58.8075 | 32288 | 427 | 32347 | 88 | 75 | 85.2273 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.2090 | 98.8739 | 99.5465 | 84.4225 | 439 | 5 | 439 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | SNP | * | func_cds | het | 99.2091 | 99.0055 | 99.4135 | 34.5015 | 11050 | 111 | 11018 | 65 | 23 | 35.3846 | |
| jli-custom | SNP | ti | map_l100_m0_e0 | * | 99.2096 | 98.8792 | 99.5422 | 63.1044 | 21527 | 244 | 21527 | 99 | 35 | 35.3535 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2098 | 99.0971 | 99.3228 | 35.3285 | 439 | 4 | 440 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2099 | 98.5704 | 99.8579 | 70.2128 | 2620 | 38 | 2810 | 4 | 4 | 100.0000 | |
| cchapple-custom | SNP | * | HG002compoundhet | * | 99.2099 | 98.9002 | 99.5216 | 40.1325 | 25538 | 284 | 26628 | 128 | 97 | 75.7812 | |
| jli-custom | SNP | ti | map_l150_m2_e0 | * | 99.2101 | 98.8933 | 99.5289 | 73.1343 | 20285 | 227 | 20283 | 96 | 36 | 37.5000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2106 | 99.7440 | 98.6829 | 40.0729 | 1948 | 5 | 1948 | 26 | 25 | 96.1538 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2107 | 98.4898 | 99.9421 | 60.9841 | 6913 | 106 | 6910 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2109 | 98.7915 | 99.6339 | 57.3510 | 1635 | 20 | 1633 | 6 | 3 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.2110 | 98.7855 | 99.6402 | 72.5769 | 3579 | 44 | 3600 | 13 | 3 | 23.0769 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e0 | homalt | 99.2113 | 99.0826 | 99.3404 | 85.1285 | 756 | 7 | 753 | 5 | 3 | 60.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2113 | 99.3725 | 99.0508 | 63.8916 | 18052 | 114 | 18052 | 173 | 163 | 94.2197 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.2117 | 99.6203 | 98.8065 | 58.3355 | 1574 | 6 | 1573 | 19 | 1 | 5.2632 | |
| raldana-dualsentieon | INDEL | * | func_cds | * | 99.2118 | 98.8764 | 99.5495 | 41.6557 | 440 | 5 | 442 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | * | 99.2121 | 98.5267 | 99.9072 | 56.6840 | 32233 | 482 | 32285 | 30 | 19 | 63.3333 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e0 | * | 99.2122 | 99.2904 | 99.1340 | 71.8789 | 16372 | 117 | 16370 | 143 | 4 | 2.7972 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | het | 99.2124 | 98.9106 | 99.5159 | 69.6159 | 20974 | 231 | 20970 | 102 | 27 | 26.4706 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2126 | 99.5485 | 98.8789 | 32.5265 | 441 | 2 | 441 | 5 | 4 | 80.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m1_e0 | homalt | 99.2126 | 98.4375 | 100.0000 | 85.0000 | 63 | 1 | 63 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.2126 | 99.1168 | 99.3086 | 83.9167 | 3591 | 32 | 3591 | 25 | 21 | 84.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | HG002complexvar | * | 99.2126 | 100.0000 | 98.4375 | 83.7150 | 4 | 0 | 378 | 6 | 2 | 33.3333 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2126 | 99.2126 | 99.2126 | 79.4830 | 126 | 1 | 126 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | HG002complexvar | * | 99.2131 | 98.7865 | 99.6433 | 53.2355 | 32318 | 397 | 31288 | 112 | 96 | 85.7143 | |
| qzeng-custom | INDEL | D1_5 | * | homalt | 99.2131 | 98.9883 | 99.4390 | 53.3870 | 48431 | 495 | 48391 | 273 | 239 | 87.5458 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | * | 99.2132 | 99.3340 | 99.0926 | 69.0197 | 21626 | 145 | 21623 | 198 | 35 | 17.6768 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2133 | 99.5848 | 98.8446 | 73.6714 | 33098 | 138 | 33109 | 387 | 353 | 91.2145 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | het | 99.2133 | 99.1190 | 99.3078 | 65.8320 | 15638 | 139 | 15637 | 109 | 24 | 22.0183 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2134 | 99.9065 | 98.5299 | 39.2599 | 18166 | 17 | 18163 | 271 | 4 | 1.4760 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | homalt | 99.2136 | 99.2136 | 99.2136 | 87.3235 | 757 | 6 | 757 | 6 | 3 | 50.0000 | |
| ckim-gatk | SNP | tv | HG002complexvar | homalt | 99.2138 | 98.4513 | 99.9883 | 23.0317 | 93638 | 1473 | 93624 | 11 | 8 | 72.7273 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.2140 | 99.2589 | 99.1691 | 72.0797 | 2009 | 15 | 2029 | 17 | 3 | 17.6471 | |
| ltrigg-rtg2 | INDEL | D6_15 | * | het | 99.2141 | 99.0942 | 99.3342 | 52.7094 | 11487 | 105 | 11339 | 76 | 26 | 34.2105 | |
| jlack-gatk | SNP | * | map_l125_m1_e0 | homalt | 99.2141 | 98.5685 | 99.8681 | 64.3628 | 16663 | 242 | 16663 | 22 | 16 | 72.7273 | |
| ghariani-varprowl | SNP | tv | func_cds | * | 99.2142 | 99.6568 | 98.7755 | 38.2266 | 4356 | 15 | 4356 | 54 | 5 | 9.2593 | |
| ltrigg-rtg2 | SNP | tv | func_cds | het | 99.2144 | 99.8118 | 98.6240 | 27.1866 | 2652 | 5 | 2652 | 37 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | het | 99.2145 | 99.5129 | 98.9179 | 70.0977 | 46173 | 226 | 46162 | 505 | 63 | 12.4752 | |
| qzeng-custom | SNP | tv | HG002complexvar | homalt | 99.2146 | 98.6185 | 99.8179 | 23.3623 | 93797 | 1314 | 91543 | 167 | 141 | 84.4311 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | homalt | 99.2147 | 99.3447 | 99.0850 | 85.6014 | 758 | 5 | 758 | 7 | 4 | 57.1429 | |
| jmaeng-gatk | SNP | tv | HG002compoundhet | het | 99.2149 | 98.7160 | 99.7189 | 56.1374 | 4613 | 60 | 4611 | 13 | 11 | 84.6154 | |
| dgrover-gatk | SNP | ti | map_l125_m1_e0 | het | 99.2150 | 99.2992 | 99.1308 | 75.9575 | 18138 | 128 | 18134 | 159 | 33 | 20.7547 | |
| jli-custom | INDEL | I1_5 | map_siren | * | 99.2153 | 98.8353 | 99.5983 | 78.8156 | 2970 | 35 | 2975 | 12 | 4 | 33.3333 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2155 | 98.8292 | 99.6047 | 53.9964 | 17642 | 209 | 17640 | 70 | 27 | 38.5714 | |