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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
63851-63900 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | * | map_l125_m1_e0 | homalt | 98.7688 | 98.6339 | 98.9041 | 86.6472 | 722 | 10 | 722 | 8 | 6 | 75.0000 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | homalt | 98.9719 | 98.6339 | 99.3122 | 86.1207 | 722 | 10 | 722 | 5 | 4 | 80.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l125_m2_e0 | het | 96.7059 | 94.1099 | 99.4490 | 76.6409 | 719 | 45 | 722 | 4 | 0 | 0.0000 | |
| ckim-gatk | SNP | * | map_l250_m0_e0 | het | 63.7809 | 47.9416 | 95.2507 | 98.3918 | 722 | 784 | 722 | 36 | 2 | 5.5556 | |
| cchapple-custom | SNP | tv | map_l250_m0_e0 | * | 94.5681 | 94.5098 | 94.6265 | 93.8008 | 723 | 42 | 722 | 41 | 8 | 19.5122 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.5041 | 98.4993 | 96.5287 | 73.6731 | 722 | 11 | 723 | 26 | 13 | 50.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4343 | 98.6357 | 98.2337 | 71.3284 | 723 | 10 | 723 | 13 | 9 | 69.2308 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | homalt | 98.9056 | 98.7705 | 99.0411 | 85.3443 | 723 | 9 | 723 | 7 | 4 | 57.1429 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.6849 | 87.6214 | 96.1436 | 66.2478 | 722 | 102 | 723 | 29 | 8 | 27.5862 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m1_e0 | homalt | 99.2467 | 99.1803 | 99.3132 | 84.0316 | 726 | 6 | 723 | 5 | 3 | 60.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m1_e0 | het | 94.1526 | 93.3076 | 95.0131 | 86.3196 | 725 | 52 | 724 | 38 | 26 | 68.4211 | |
| jlack-gatk | INDEL | * | map_l125_m1_e0 | homalt | 98.9071 | 98.9071 | 98.9071 | 85.4009 | 724 | 8 | 724 | 8 | 4 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.6376 | 98.7722 | 98.5034 | 72.1591 | 724 | 9 | 724 | 11 | 7 | 63.6364 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | homalt | 98.9747 | 98.9071 | 99.0424 | 85.2054 | 724 | 8 | 724 | 7 | 6 | 85.7143 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | homalt | 98.9747 | 98.9071 | 99.0424 | 86.2723 | 724 | 8 | 724 | 7 | 4 | 57.1429 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.9071 | 98.7722 | 99.0424 | 71.9709 | 724 | 9 | 724 | 7 | 5 | 71.4286 | |
| gduggal-snapfb | SNP | tv | map_l250_m0_e0 | * | 93.9650 | 94.6405 | 93.2990 | 94.3329 | 724 | 41 | 724 | 52 | 12 | 23.0769 | |
| gduggal-bwavard | INDEL | * | map_l125_m2_e1 | homalt | 96.3491 | 93.7984 | 99.0424 | 81.2275 | 726 | 48 | 724 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.1114 | 98.9086 | 99.3151 | 72.3170 | 725 | 8 | 725 | 5 | 5 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | homalt | 98.9761 | 99.0437 | 98.9086 | 84.6202 | 725 | 7 | 725 | 8 | 6 | 75.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 95.7656 | 94.6335 | 96.9251 | 88.4193 | 723 | 41 | 725 | 23 | 3 | 13.0435 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 39.0803 | 30.2044 | 55.3435 | 41.1500 | 399 | 922 | 725 | 585 | 494 | 84.4444 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e0 | het | 79.5780 | 74.5033 | 85.3946 | 95.3000 | 675 | 231 | 725 | 124 | 19 | 15.3226 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e1 | homalt | 96.9748 | 97.1545 | 96.7957 | 89.6318 | 478 | 14 | 725 | 24 | 24 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.5095 | 84.7418 | 99.4521 | 75.3295 | 722 | 130 | 726 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | homalt | 99.2481 | 99.1803 | 99.3160 | 86.5054 | 726 | 6 | 726 | 5 | 3 | 60.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 90.6252 | 83.1422 | 99.5885 | 23.9833 | 725 | 147 | 726 | 3 | 3 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 48.8684 | 40.9881 | 60.5000 | 69.8341 | 755 | 1087 | 726 | 474 | 272 | 57.3840 | |
| ckim-gatk | INDEL | * | map_l125_m1_e0 | homalt | 99.1803 | 99.1803 | 99.1803 | 86.4895 | 726 | 6 | 726 | 6 | 4 | 66.6667 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m2_e1 | * | 93.7984 | 93.3162 | 94.2857 | 89.3910 | 726 | 52 | 726 | 44 | 22 | 50.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5075 | 99.0450 | 97.9757 | 72.8173 | 726 | 7 | 726 | 15 | 12 | 80.0000 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e0 | homalt | 87.3121 | 77.4813 | 100.0000 | 90.2170 | 726 | 211 | 726 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | * | map_l125_m1_e0 | homalt | 99.2491 | 99.3169 | 99.1814 | 84.1205 | 727 | 5 | 727 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 89.6491 | 94.3079 | 85.4289 | 76.7105 | 729 | 44 | 727 | 124 | 122 | 98.3871 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 88.1747 | 79.7149 | 98.6431 | 65.5124 | 727 | 185 | 727 | 10 | 8 | 80.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 89.8753 | 95.0578 | 85.2286 | 76.3056 | 904 | 47 | 727 | 126 | 44 | 34.9206 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | homalt | 99.2491 | 99.3169 | 99.1814 | 84.5684 | 727 | 5 | 727 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7581 | 95.3172 | 98.2432 | 76.2972 | 631 | 31 | 727 | 13 | 8 | 61.5385 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.7788 | 99.3179 | 98.2456 | 73.2684 | 728 | 5 | 728 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | * | map_l125_m1_e0 | homalt | 99.3179 | 99.4536 | 99.1826 | 86.0562 | 728 | 4 | 728 | 6 | 4 | 66.6667 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4449 | 99.3179 | 97.5871 | 73.2136 | 728 | 5 | 728 | 18 | 14 | 77.7778 | |
| bgallagher-sentieon | INDEL | * | map_l125_m1_e0 | homalt | 99.2502 | 99.4536 | 99.0476 | 85.8491 | 728 | 4 | 728 | 7 | 4 | 57.1429 | |
| jli-custom | SNP | tv | map_l250_m0_e0 | * | 96.8085 | 95.1634 | 98.5115 | 89.9973 | 728 | 37 | 728 | 11 | 5 | 45.4545 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.6450 | 99.3179 | 97.9812 | 73.0406 | 728 | 5 | 728 | 15 | 10 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l125_m2_e1 | het | 96.6680 | 94.1558 | 99.3179 | 76.7302 | 725 | 45 | 728 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l150_m2_e0 | * | 97.0527 | 94.8886 | 99.3179 | 83.4836 | 724 | 39 | 728 | 5 | 2 | 40.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.9147 | 55.1698 | 52.7154 | 94.4211 | 715 | 581 | 728 | 653 | 58 | 8.8821 | |
| gduggal-snapplat | SNP | ti | map_l250_m0_e0 | het | 84.2801 | 77.7302 | 92.0354 | 96.9671 | 726 | 208 | 728 | 63 | 27 | 42.8571 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e0 | het | 67.2880 | 52.1927 | 94.6684 | 82.7849 | 726 | 665 | 728 | 41 | 17 | 41.4634 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | het | 60.5332 | 77.1765 | 49.7948 | 74.1605 | 656 | 194 | 728 | 734 | 607 | 82.6975 | |