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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18301-18350 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.3753 | 98.5816 | 88.6914 | 66.8807 | 556 | 8 | 549 | 70 | 69 | 98.5714 | |
| cchapple-custom | SNP | ti | map_siren | het | 98.0329 | 98.5813 | 97.4906 | 61.4640 | 61497 | 885 | 61538 | 1584 | 362 | 22.8535 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9726 | 98.5812 | 99.3672 | 71.8268 | 15356 | 221 | 15545 | 99 | 39 | 39.3939 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1492 | 98.5802 | 99.7249 | 57.4159 | 19580 | 282 | 19573 | 54 | 32 | 59.2593 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.9804 | 98.5801 | 99.3840 | 55.4845 | 486 | 7 | 484 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8156 | 98.5801 | 99.0522 | 46.3316 | 6179 | 89 | 6166 | 59 | 7 | 11.8644 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 95.2623 | 98.5801 | 92.1606 | 58.7214 | 486 | 7 | 482 | 41 | 1 | 2.4390 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0398 | 98.5800 | 99.5039 | 51.7553 | 1805 | 26 | 1805 | 9 | 1 | 11.1111 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | * | 97.9979 | 98.5800 | 97.4227 | 90.0883 | 1319 | 19 | 1323 | 35 | 7 | 20.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | * | 97.9254 | 98.5800 | 97.2794 | 89.7079 | 1319 | 19 | 1323 | 37 | 6 | 16.2162 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.5257 | 98.5798 | 98.4716 | 73.3734 | 21588 | 311 | 21584 | 335 | 163 | 48.6567 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9460 | 98.5791 | 99.3156 | 73.7970 | 93107 | 1342 | 93014 | 641 | 576 | 89.8596 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6770 | 98.5789 | 98.7753 | 48.4673 | 3954 | 57 | 3952 | 49 | 32 | 65.3061 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | homalt | 98.8342 | 98.5788 | 99.0909 | 86.5970 | 763 | 11 | 763 | 7 | 4 | 57.1429 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e1 | homalt | 98.6425 | 98.5788 | 98.7063 | 87.5222 | 763 | 11 | 763 | 10 | 6 | 60.0000 | |
| ghariani-varprowl | SNP | * | map_l125_m0_e0 | het | 96.3272 | 98.5786 | 94.1762 | 82.3918 | 12484 | 180 | 12484 | 772 | 162 | 20.9845 | |
| astatham-gatk | SNP | * | segdup | * | 99.1969 | 98.5784 | 99.8232 | 90.3648 | 27668 | 399 | 27662 | 49 | 12 | 24.4898 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.2840 | 98.5782 | 100.0000 | 47.6071 | 208 | 3 | 208 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.2840 | 98.5782 | 100.0000 | 47.3418 | 208 | 3 | 208 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.9772 | 98.5782 | 91.6300 | 69.1156 | 208 | 3 | 208 | 19 | 18 | 94.7368 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9179 | 98.5780 | 99.2602 | 53.6895 | 7279 | 105 | 7245 | 54 | 49 | 90.7407 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.1734 | 98.5778 | 99.7763 | 50.5713 | 1317 | 19 | 1338 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0802 | 98.5775 | 99.5880 | 67.8801 | 30700 | 443 | 30701 | 127 | 3 | 2.3622 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0802 | 98.5775 | 99.5880 | 67.8801 | 30700 | 443 | 30701 | 127 | 3 | 2.3622 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 67.8919 | 98.5775 | 51.7751 | 39.8577 | 693 | 10 | 700 | 652 | 649 | 99.5399 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e1 | homalt | 98.5772 | 98.5772 | 98.5772 | 88.8207 | 485 | 7 | 485 | 7 | 5 | 71.4286 | |
| jlack-gatk | INDEL | * | map_l150_m2_e1 | homalt | 98.4772 | 98.5772 | 98.3773 | 89.0274 | 485 | 7 | 485 | 8 | 5 | 62.5000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.9226 | 98.5770 | 79.3467 | 77.1325 | 762 | 11 | 753 | 196 | 156 | 79.5918 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.1505 | 98.5769 | 91.9543 | 85.8273 | 4087 | 59 | 4103 | 359 | 47 | 13.0919 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9932 | 98.5767 | 99.4132 | 76.4066 | 2424 | 35 | 2372 | 14 | 10 | 71.4286 | |
| hfeng-pmm2 | INDEL | * | map_l125_m1_e0 | * | 98.2517 | 98.5762 | 97.9294 | 87.1694 | 2077 | 30 | 2081 | 44 | 7 | 15.9091 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1997 | 98.5761 | 97.8261 | 89.4229 | 900 | 13 | 900 | 20 | 13 | 65.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9011 | 98.5761 | 99.2282 | 89.6010 | 900 | 13 | 900 | 7 | 6 | 85.7143 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9186 | 98.5743 | 99.2654 | 69.9659 | 2973 | 43 | 2973 | 22 | 9 | 40.9091 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.5605 | 98.5736 | 98.5474 | 69.9656 | 1313 | 19 | 1289 | 19 | 14 | 73.6842 | |
| ghariani-varprowl | INDEL | * | * | het | 89.6326 | 98.5731 | 82.1789 | 64.2989 | 191361 | 2770 | 191449 | 41517 | 38150 | 91.8901 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m2_e0 | homalt | 99.0050 | 98.5726 | 99.4413 | 82.1306 | 1243 | 18 | 1246 | 7 | 4 | 57.1429 | |
| ckim-dragen | INDEL | * | map_l100_m2_e0 | homalt | 98.5323 | 98.5726 | 98.4921 | 84.5872 | 1243 | 18 | 1241 | 19 | 10 | 52.6316 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.3543 | 98.5726 | 92.3394 | 77.6916 | 4696 | 68 | 4701 | 390 | 34 | 8.7180 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.5724 | 99.5330 | 77.2638 | 1519 | 22 | 1492 | 7 | 2 | 28.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | map_siren | het | 98.9267 | 98.5723 | 99.2836 | 81.6659 | 1657 | 24 | 1663 | 12 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1381 | 98.5714 | 99.7113 | 61.0570 | 1035 | 15 | 1036 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_siren | het | 94.1776 | 98.5714 | 90.1587 | 84.4291 | 276 | 4 | 284 | 31 | 19 | 61.2903 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9677 | 98.5714 | 95.4152 | 84.7413 | 1311 | 19 | 1103 | 53 | 36 | 67.9245 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1845 | 98.5711 | 99.8055 | 37.0083 | 4622 | 67 | 4619 | 9 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.5286 | 98.5711 | 98.4861 | 38.0204 | 4622 | 67 | 4619 | 71 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | homalt | 99.1889 | 98.5707 | 99.8149 | 67.8533 | 5931 | 86 | 5931 | 11 | 7 | 63.6364 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9388 | 98.5705 | 99.3099 | 68.9036 | 3103 | 45 | 3166 | 22 | 16 | 72.7273 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2099 | 98.5704 | 99.8579 | 70.2128 | 2620 | 38 | 2810 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9427 | 98.5704 | 99.3179 | 69.3175 | 2620 | 38 | 2621 | 18 | 14 | 77.7778 | |