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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80251-80300 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 82.0644 | 81.9516 | 82.1775 | 73.4245 | 1117 | 246 | 1102 | 239 | 147 | 61.5063 | |
| 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-gatk | INDEL | I1_5 | * | het | 99.5633 | 99.6774 | 99.4495 | 61.8943 | 78786 | 255 | 78766 | 436 | 147 | 33.7156 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 41.5478 | 32.1377 | 58.7500 | 48.1865 | 224 | 473 | 235 | 165 | 147 | 89.0909 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.5066 | 97.9670 | 99.0521 | 55.3862 | 16095 | 334 | 16093 | 154 | 147 | 95.4545 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.0894 | 90.4040 | 91.7852 | 74.4242 | 1969 | 209 | 1743 | 156 | 147 | 94.2308 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002compoundhet | homalt | 64.7761 | 74.5704 | 57.2559 | 81.8487 | 217 | 74 | 217 | 162 | 147 | 90.7407 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1286 | 95.4588 | 98.8579 | 46.1719 | 13159 | 626 | 13157 | 152 | 147 | 96.7105 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2519 | 95.6239 | 98.9362 | 48.5377 | 14138 | 647 | 14136 | 152 | 147 | 96.7105 | |
| jpowers-varprowl | SNP | ti | map_l100_m0_e0 | * | 97.4083 | 96.6745 | 98.1533 | 73.0718 | 21047 | 724 | 21048 | 396 | 147 | 37.1212 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | homalt | 87.5156 | 94.1691 | 81.7402 | 67.9371 | 646 | 40 | 667 | 149 | 147 | 98.6577 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.1115 | 96.7548 | 99.5067 | 50.1900 | 36672 | 1230 | 36914 | 183 | 147 | 80.3279 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.7238 | 95.4086 | 92.0974 | 77.5572 | 2078 | 100 | 1853 | 159 | 148 | 93.0818 | |
| qzeng-custom | SNP | * | HG002compoundhet | * | 98.2824 | 98.1489 | 98.4164 | 46.9711 | 25344 | 478 | 25604 | 412 | 148 | 35.9223 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6793 | 98.2539 | 97.1113 | 81.2381 | 44904 | 798 | 44812 | 1333 | 148 | 11.1028 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 44.4716 | 32.8160 | 68.9674 | 74.6267 | 1459 | 2987 | 1289 | 580 | 148 | 25.5172 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e0 | homalt | 68.6340 | 94.0299 | 54.0390 | 86.8015 | 189 | 12 | 194 | 165 | 148 | 89.6970 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.6343 | 78.9796 | 93.5135 | 45.7111 | 387 | 103 | 2249 | 156 | 148 | 94.8718 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | homalt | 98.5958 | 99.1036 | 98.0931 | 56.9237 | 10503 | 95 | 10494 | 204 | 148 | 72.5490 | |
| egarrison-hhga | SNP | ti | HG002complexvar | * | 99.8425 | 99.7343 | 99.9509 | 17.5278 | 507085 | 1351 | 507107 | 249 | 148 | 59.4378 | |
| 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 | |
| jlack-gatk | SNP | * | map_l125_m0_e0 | * | 94.5944 | 98.3647 | 91.1024 | 82.9942 | 19068 | 317 | 19065 | 1862 | 148 | 7.9484 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 73.9166 | 60.1605 | 95.8284 | 81.8541 | 9672 | 6405 | 9671 | 421 | 148 | 35.1544 | |
| gduggal-bwaplat | SNP | * | HG002compoundhet | homalt | 95.7606 | 93.2573 | 98.4021 | 40.3893 | 10055 | 727 | 9976 | 162 | 149 | 91.9753 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 29.7953 | 74.0000 | 18.6528 | 60.2062 | 37 | 13 | 36 | 157 | 149 | 94.9045 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.9830 | 54.5121 | 93.9135 | 78.7818 | 5491 | 4582 | 5493 | 356 | 149 | 41.8539 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 69.7822 | 60.7755 | 81.9227 | 56.9113 | 1630 | 1052 | 784 | 173 | 149 | 86.1272 | |
| dgrover-gatk | INDEL | D1_5 | * | homalt | 99.8204 | 99.9489 | 99.6922 | 62.5668 | 48901 | 25 | 48906 | 151 | 149 | 98.6755 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | * | 94.4568 | 97.0001 | 92.0434 | 74.6951 | 23766 | 735 | 23680 | 2047 | 149 | 7.2789 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.4961 | 97.7763 | 99.2266 | 43.2593 | 20138 | 458 | 20142 | 157 | 149 | 94.9045 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.1925 | 58.9431 | 48.4642 | 77.5994 | 145 | 101 | 142 | 151 | 149 | 98.6755 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9586 | 98.9331 | 97.0031 | 50.6413 | 17989 | 194 | 18029 | 557 | 149 | 26.7504 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | homalt | 85.9425 | 85.3596 | 86.5334 | 78.1760 | 997 | 171 | 996 | 155 | 149 | 96.1290 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.0150 | 95.3702 | 96.6686 | 70.3632 | 4882 | 237 | 4875 | 168 | 149 | 88.6905 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002compoundhet | homalt | 80.1968 | 99.0881 | 67.3554 | 78.4506 | 326 | 3 | 326 | 158 | 149 | 94.3038 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1100 | 99.2769 | 96.9703 | 51.0036 | 5080 | 37 | 5089 | 159 | 149 | 93.7107 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2431 | 99.2607 | 97.2461 | 57.3108 | 5639 | 42 | 5650 | 160 | 149 | 93.1250 | |
| asubramanian-gatk | INDEL | I1_5 | * | het | 99.1412 | 98.6564 | 99.6308 | 61.4273 | 77979 | 1062 | 77980 | 289 | 149 | 51.5571 | |
| jli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3482 | 99.1423 | 99.5550 | 73.6647 | 47857 | 414 | 47648 | 213 | 149 | 69.9531 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0315 | 98.4878 | 97.5794 | 54.7750 | 6578 | 101 | 6571 | 163 | 149 | 91.4110 | |
| ciseli-custom | SNP | ti | HG002compoundhet | het | 71.3901 | 79.1057 | 65.0459 | 46.7631 | 7519 | 1986 | 7585 | 4076 | 149 | 3.6555 | |
| cchapple-custom | INDEL | D1_5 | * | het | 99.5112 | 99.3229 | 99.7003 | 54.7900 | 86981 | 593 | 97146 | 292 | 149 | 51.0274 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| ciseli-custom | INDEL | * | segdup | homalt | 85.4420 | 87.9167 | 83.1028 | 93.1884 | 844 | 116 | 841 | 171 | 150 | 87.7193 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.0774 | 70.4225 | 85.1214 | 55.3497 | 350 | 147 | 1087 | 190 | 150 | 78.9474 | |