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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60151-60200 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7204 | 98.1014 | 99.3473 | 45.8867 | 3617 | 70 | 3653 | 24 | 22 | 91.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | homalt | 99.5102 | 99.1299 | 99.8933 | 45.8849 | 13330 | 117 | 13110 | 14 | 9 | 64.2857 | |
| ckim-isaac | SNP | tv | HG002compoundhet | * | 85.3990 | 78.0567 | 94.2659 | 45.8825 | 6965 | 1958 | 7217 | 439 | 382 | 87.0159 | |
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | hetalt | 95.4049 | 91.2566 | 99.9482 | 45.8824 | 1910 | 183 | 1931 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002compoundhet | * | 0.9920 | 0.5133 | 14.7343 | 45.8824 | 11 | 2132 | 61 | 353 | 189 | 53.5411 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 97.5038 | 96.4789 | 98.5507 | 45.8824 | 137 | 5 | 136 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 97.1429 | 95.7746 | 98.5507 | 45.8824 | 136 | 6 | 136 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.1637 | 81.3486 | 93.8742 | 45.8781 | 567 | 130 | 567 | 37 | 37 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.4770 | 96.4561 | 94.5176 | 45.8743 | 6505 | 239 | 6603 | 383 | 170 | 44.3864 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.6872 | 99.3763 | 100.0000 | 45.8664 | 478 | 3 | 478 | 0 | 0 | ||
| ndellapenna-hhga | SNP | ti | tech_badpromoters | * | 100.0000 | 100.0000 | 100.0000 | 45.8599 | 85 | 0 | 85 | 0 | 0 | ||
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.9918 | 88.3797 | 73.0580 | 45.8556 | 540 | 71 | 1928 | 711 | 372 | 52.3207 | |
| bgallagher-sentieon | INDEL | I16_PLUS | HG002compoundhet | hetalt | 95.0877 | 90.6355 | 100.0000 | 45.8521 | 1897 | 196 | 1919 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 93.2232 | 88.4116 | 98.5887 | 45.8515 | 4219 | 553 | 489 | 7 | 7 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | func_cds | * | 95.0437 | 90.5556 | 100.0000 | 45.8472 | 163 | 17 | 163 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6003 | 99.4016 | 99.7997 | 45.8452 | 3987 | 24 | 3987 | 8 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4872 | 99.1352 | 99.8416 | 45.8405 | 2522 | 22 | 2522 | 4 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 89.2731 | 80.7561 | 99.7985 | 45.8371 | 5447 | 1298 | 5447 | 11 | 11 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | het | 98.7987 | 98.2358 | 99.3681 | 45.8366 | 9856 | 177 | 9592 | 61 | 15 | 24.5902 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6626 | 99.4266 | 99.8998 | 45.8345 | 3988 | 23 | 3988 | 4 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 45.8333 | 13 | 0 | 13 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 14.2857 | 7.6923 | 100.0000 | 45.8333 | 1 | 12 | 13 | 0 | 0 | ||
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0184 | 98.5852 | 97.4582 | 45.8333 | 1742 | 25 | 1457 | 38 | 11 | 28.9474 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.6522 | 91.6667 | 100.0000 | 45.8333 | 11 | 1 | 13 | 0 | 0 | ||
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 66.6667 | 50.0000 | 100.0000 | 45.8333 | 14 | 14 | 13 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 64.8649 | 48.0000 | 100.0000 | 45.8333 | 12 | 13 | 13 | 0 | 0 | ||
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 45.8333 | 13 | 0 | 13 | 0 | 0 | ||
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.6522 | 91.6667 | 100.0000 | 45.8333 | 11 | 1 | 13 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.6522 | 91.6667 | 100.0000 | 45.8333 | 11 | 1 | 13 | 0 | 0 | ||
| anovak-vg | SNP | * | tech_badpromoters | het | 84.5070 | 77.9221 | 92.3077 | 45.8333 | 60 | 17 | 60 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 45.8333 | 13 | 0 | 13 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.5531 | 82.3858 | 91.1644 | 45.8288 | 12984 | 2776 | 21554 | 2089 | 859 | 41.1202 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | het | 96.9467 | 98.6218 | 95.3275 | 45.8199 | 9374 | 131 | 9446 | 463 | 78 | 16.8467 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5965 | 95.7727 | 99.4912 | 45.8166 | 14160 | 625 | 14078 | 72 | 63 | 87.5000 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 60.5664 | 45.6229 | 90.0673 | 45.8084 | 4779 | 5696 | 4815 | 531 | 472 | 88.8889 | |
| hfeng-pmm3 | SNP | ti | * | hetalt | 99.7420 | 99.6564 | 99.8279 | 45.8022 | 580 | 2 | 580 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | func_cds | het | 99.2974 | 99.0654 | 99.5305 | 45.8015 | 212 | 2 | 212 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002compoundhet | het | 6.6071 | 4.2553 | 14.7700 | 45.8005 | 2 | 45 | 61 | 352 | 188 | 53.4091 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.7774 | 93.1267 | 90.4666 | 45.7994 | 691 | 51 | 4033 | 425 | 374 | 88.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.7791 | 28.9773 | 35.1807 | 45.7989 | 357 | 875 | 438 | 807 | 617 | 76.4560 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 81.9826 | 70.2857 | 98.3498 | 45.7961 | 123 | 52 | 298 | 5 | 4 | 80.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.2033 | 94.2180 | 92.2102 | 45.7942 | 2982 | 183 | 2983 | 252 | 219 | 86.9048 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7636 | 100.0000 | 99.5283 | 45.7801 | 211 | 0 | 211 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.0695 | 89.1473 | 99.5671 | 45.7746 | 230 | 28 | 230 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7127 | 54.1731 | 83.4992 | 45.7734 | 1058 | 895 | 1007 | 199 | 131 | 65.8291 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.6540 | 89.8499 | 87.4895 | 45.7726 | 8498 | 960 | 9343 | 1336 | 702 | 52.5449 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.0520 | 99.8745 | 98.2429 | 45.7715 | 10344 | 13 | 10344 | 185 | 181 | 97.8378 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.7464 | 96.2737 | 87.6259 | 45.7712 | 3152 | 122 | 8703 | 1229 | 548 | 44.5891 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | * | 52.3530 | 38.8846 | 80.0955 | 45.7686 | 509 | 800 | 503 | 125 | 124 | 99.2000 | |