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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41401-41450 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 88.8820 | 96.0769 | 82.6897 | 71.8992 | 1200 | 49 | 1199 | 251 | 105 | 41.8327 | |
| anovak-vg | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 8.8235 | 71.9008 | 0 | 0 | 3 | 31 | 4 | 12.9032 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9893 | 96.9635 | 99.0370 | 71.9042 | 15104 | 473 | 15118 | 147 | 133 | 90.4762 | |
| ciseli-custom | SNP | tv | map_l150_m1_e0 | homalt | 85.3488 | 82.6913 | 88.1828 | 71.9082 | 3263 | 683 | 3261 | 437 | 339 | 77.5744 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 83.1234 | 93.2203 | 75.0000 | 71.9101 | 55 | 4 | 75 | 25 | 18 | 72.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 46.1240 | 34.8974 | 68.0000 | 71.9101 | 119 | 222 | 17 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.5123 | 99.4950 | 99.5296 | 71.9110 | 28567 | 145 | 28561 | 135 | 47 | 34.8148 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.5123 | 99.4950 | 99.5296 | 71.9110 | 28567 | 145 | 28561 | 135 | 47 | 34.8148 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0141 | 98.5968 | 99.4350 | 71.9122 | 2108 | 30 | 2112 | 12 | 2 | 16.6667 | |
| gduggal-bwavard | SNP | tv | map_l125_m0_e0 | homalt | 98.4958 | 97.2985 | 99.7229 | 71.9123 | 2161 | 60 | 2159 | 6 | 4 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.9005 | 93.9873 | 100.0000 | 71.9133 | 297 | 19 | 298 | 0 | 0 | ||
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4424 | 96.0934 | 98.8298 | 71.9151 | 1894 | 77 | 1858 | 22 | 8 | 36.3636 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4424 | 96.0934 | 98.8298 | 71.9151 | 1894 | 77 | 1858 | 22 | 8 | 36.3636 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e0 | homalt | 99.1290 | 98.5842 | 99.6799 | 71.9156 | 17129 | 246 | 17129 | 55 | 40 | 72.7273 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 63.5187 | 93.8508 | 48.0041 | 71.9172 | 931 | 61 | 938 | 1016 | 8 | 0.7874 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.4278 | 99.2381 | 99.6183 | 71.9185 | 521 | 4 | 522 | 2 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | * | 98.8454 | 97.9392 | 99.7685 | 71.9216 | 12499 | 263 | 12499 | 29 | 16 | 55.1724 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.8252 | 99.7776 | 99.8728 | 71.9221 | 3141 | 7 | 3141 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002compoundhet | homalt | 69.9841 | 96.2199 | 54.9902 | 71.9231 | 280 | 11 | 281 | 230 | 208 | 90.4348 | |
| hfeng-pmm2 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.9235 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1963 | 98.5919 | 99.8081 | 71.9245 | 32768 | 468 | 32762 | 63 | 44 | 69.8413 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0937 | 99.5146 | 98.6763 | 71.9257 | 820 | 4 | 820 | 11 | 1 | 9.0909 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5885 | 99.1803 | 100.0000 | 71.9258 | 121 | 1 | 121 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.3775 | 98.4684 | 96.3105 | 71.9263 | 1993 | 31 | 2010 | 77 | 2 | 2.5974 | |
| gduggal-snapvard | INDEL | C6_15 | HG002complexvar | het | 70.5584 | 100.0000 | 54.5098 | 71.9266 | 4 | 0 | 417 | 348 | 129 | 37.0690 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | homalt | 84.4618 | 76.1246 | 94.8498 | 71.9277 | 220 | 69 | 221 | 12 | 10 | 83.3333 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e1 | homalt | 99.1340 | 98.5911 | 99.6828 | 71.9295 | 17285 | 247 | 17285 | 55 | 40 | 72.7273 | |
| gduggal-snapplat | INDEL | * | tech_badpromoters | homalt | 53.0612 | 39.3939 | 81.2500 | 71.9298 | 13 | 20 | 13 | 3 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 44.1176 | 75.0000 | 31.2500 | 71.9298 | 6 | 2 | 5 | 11 | 11 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 94.6735 | 92.3896 | 97.0732 | 71.9306 | 607 | 50 | 597 | 18 | 6 | 33.3333 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.8140 | 91.9643 | 100.0000 | 71.9346 | 103 | 9 | 103 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.8140 | 91.9643 | 100.0000 | 71.9346 | 103 | 9 | 103 | 0 | 0 | ||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.3843 | 99.1803 | 95.6522 | 71.9357 | 484 | 4 | 484 | 22 | 18 | 81.8182 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.8420 | 95.3291 | 98.4036 | 71.9360 | 898 | 44 | 863 | 14 | 8 | 57.1429 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.9377 | 87.2897 | 99.3671 | 71.9361 | 467 | 68 | 471 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.8588 | 70.1897 | 92.6174 | 71.9397 | 259 | 110 | 276 | 22 | 21 | 95.4545 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.1636 | 95.9569 | 98.4012 | 71.9413 | 712 | 30 | 677 | 11 | 7 | 63.6364 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e1 | * | 99.2171 | 99.2976 | 99.1368 | 71.9418 | 16540 | 117 | 16538 | 144 | 4 | 2.7778 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 47.5592 | 44.5161 | 51.0490 | 71.9424 | 69 | 86 | 219 | 210 | 175 | 83.3333 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.3991 | 97.0540 | 88.1703 | 71.9469 | 593 | 18 | 559 | 75 | 71 | 94.6667 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 61.5021 | 60.6742 | 62.3529 | 71.9472 | 54 | 35 | 53 | 32 | 22 | 68.7500 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | * | 99.3629 | 99.4529 | 99.2732 | 71.9477 | 45079 | 248 | 45073 | 330 | 39 | 11.8182 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 59.5825 | 43.7326 | 93.4524 | 71.9533 | 157 | 202 | 157 | 11 | 10 | 90.9091 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 49.8505 | 34.5745 | 89.3103 | 71.9536 | 260 | 492 | 259 | 31 | 20 | 64.5161 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 71.9540 | 122 | 0 | 122 | 0 | 0 | ||
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.0761 | 81.4952 | 98.2120 | 71.9556 | 1537 | 349 | 1538 | 28 | 27 | 96.4286 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.0946 | 96.0916 | 98.1187 | 71.9562 | 713 | 29 | 678 | 13 | 8 | 61.5385 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 84.7915 | 95.5414 | 76.2159 | 71.9574 | 1200 | 56 | 1426 | 445 | 60 | 13.4831 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.1515 | 96.1503 | 98.1737 | 71.9585 | 2073 | 83 | 2204 | 41 | 32 | 78.0488 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0298 | 97.8096 | 98.2511 | 71.9586 | 3483 | 78 | 3483 | 62 | 54 | 87.0968 | |