PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10351-10400 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.6565 | 78.2921 | 97.0220 | 41.1897 | 5345 | 1482 | 5343 | 164 | 163 | 99.3902 | |
| gduggal-snapfb | INDEL | D6_15 | * | homalt | 84.4844 | 84.4926 | 84.4762 | 53.3817 | 5345 | 981 | 5322 | 978 | 974 | 99.5910 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | * | 40.9816 | 25.7878 | 99.7572 | 94.2645 | 5344 | 15379 | 5342 | 13 | 5 | 38.4615 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e1 | homalt | 93.5797 | 87.9486 | 99.9813 | 71.5146 | 5342 | 732 | 5342 | 1 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.5127 | 86.3519 | 84.6897 | 75.2304 | 5340 | 844 | 5349 | 967 | 23 | 2.3785 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| astatham-gatk | SNP | tv | map_l150_m1_e0 | het | 86.7142 | 76.8644 | 99.4596 | 83.0624 | 5339 | 1607 | 5337 | 29 | 8 | 27.5862 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1639 | 98.4142 | 99.9251 | 72.5328 | 5337 | 86 | 5337 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1639 | 98.4142 | 99.9251 | 72.5328 | 5337 | 86 | 5337 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | * | homalt | 91.2395 | 85.5426 | 97.7493 | 57.4509 | 5337 | 902 | 5342 | 123 | 103 | 83.7398 | |
| gduggal-snapfb | INDEL | D6_15 | * | hetalt | 74.5835 | 65.2679 | 87.0010 | 49.2731 | 5335 | 2839 | 850 | 127 | 126 | 99.2126 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 68.8773 | 63.7081 | 74.9595 | 62.4506 | 5326 | 3034 | 5550 | 1854 | 1409 | 75.9978 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 68.8773 | 63.7081 | 74.9595 | 62.4506 | 5326 | 3034 | 5550 | 1854 | 1409 | 75.9978 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.2027 | 72.0883 | 95.6186 | 70.2749 | 5323 | 2061 | 5325 | 244 | 63 | 25.8197 | |
| gduggal-snapfb | INDEL | D6_15 | HG002compoundhet | hetalt | 76.8495 | 65.2926 | 93.3775 | 40.5512 | 5322 | 2829 | 846 | 60 | 59 | 98.3333 | |
| gduggal-snapplat | INDEL | * | map_siren | * | 79.6077 | 71.8219 | 89.2868 | 89.6136 | 5322 | 2088 | 5709 | 685 | 78 | 11.3869 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 81.2213 | 71.4171 | 94.1457 | 64.2321 | 5322 | 2130 | 5339 | 332 | 30 | 9.0361 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 79.3428 | 82.9101 | 76.0698 | 72.6664 | 5322 | 1097 | 5404 | 1700 | 930 | 54.7059 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 83.0571 | 91.0366 | 76.3636 | 59.1295 | 5322 | 524 | 5292 | 1638 | 1616 | 98.6569 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 83.0571 | 91.0366 | 76.3636 | 59.1295 | 5322 | 524 | 5292 | 1638 | 1616 | 98.6569 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 39.0121 | 35.9892 | 42.5893 | 55.2279 | 5321 | 9464 | 5316 | 7166 | 7112 | 99.2464 | |
| gduggal-bwaplat | INDEL | D6_15 | * | homalt | 90.8801 | 84.1132 | 98.8312 | 57.2595 | 5321 | 1005 | 5327 | 63 | 57 | 90.4762 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.8275 | 71.3902 | 98.6286 | 59.1429 | 5320 | 2132 | 5322 | 74 | 14 | 18.9189 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9195 | 97.9163 | 99.9436 | 71.6321 | 5310 | 113 | 5314 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9195 | 97.9163 | 99.9436 | 71.6321 | 5310 | 113 | 5314 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.5228 | 97.5359 | 99.5300 | 31.9212 | 5304 | 134 | 5294 | 25 | 25 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.4486 | 97.4071 | 99.5127 | 25.8925 | 5297 | 141 | 5309 | 26 | 25 | 96.1538 | |
| ckim-vqsr | SNP | tv | map_l150_m1_e0 | * | 64.9686 | 48.5062 | 98.3460 | 91.7373 | 5293 | 5619 | 5292 | 89 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | map_siren | * | 74.2881 | 71.4035 | 77.4156 | 83.7506 | 5291 | 2119 | 5296 | 1545 | 1017 | 65.8252 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | homalt | 93.5527 | 87.9009 | 99.9811 | 71.5032 | 5289 | 728 | 5290 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | * | * | 83.4199 | 82.9387 | 83.9068 | 61.2425 | 5289 | 1088 | 5292 | 1015 | 362 | 35.6650 | |
| eyeh-varpipe | SNP | tv | segdup | het | 95.3870 | 99.8298 | 91.3228 | 92.1659 | 5278 | 9 | 5178 | 492 | 4 | 0.8130 | |
| ckim-dragen | SNP | tv | segdup | het | 97.4236 | 99.7730 | 95.1822 | 94.3912 | 5275 | 12 | 5275 | 267 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | segdup | het | 99.5280 | 99.7730 | 99.2842 | 92.5335 | 5275 | 12 | 5271 | 38 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | segdup | het | 99.2561 | 99.7541 | 98.7631 | 92.1695 | 5274 | 13 | 5270 | 66 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.6798 | 5274 | 1 | 5274 | 0 | 0 | ||
| hfeng-pmm2 | SNP | tv | segdup | het | 99.5467 | 99.7541 | 99.3402 | 91.9297 | 5274 | 13 | 5270 | 35 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.5962 | 5274 | 1 | 5274 | 0 | 0 | ||
| hfeng-pmm1 | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 20.7037 | 5274 | 1 | 5274 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | func_cds | homalt | 99.9905 | 99.9810 | 100.0000 | 19.3825 | 5274 | 1 | 5274 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | func_cds | homalt | 99.9716 | 99.9810 | 99.9621 | 22.5825 | 5274 | 1 | 5274 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | ti | func_cds | homalt | 99.9810 | 99.9621 | 100.0000 | 20.9919 | 5273 | 2 | 5273 | 0 | 0 | ||
| ndellapenna-hhga | SNP | ti | func_cds | homalt | 99.9810 | 99.9621 | 100.0000 | 20.8377 | 5273 | 2 | 5273 | 0 | 0 | ||
| eyeh-varpipe | SNP | ti | func_cds | homalt | 99.9810 | 99.9621 | 100.0000 | 20.7688 | 5273 | 2 | 5215 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | func_cds | homalt | 99.9810 | 99.9621 | 100.0000 | 20.7187 | 5273 | 2 | 5273 | 0 | 0 | ||
| cchapple-custom | SNP | tv | segdup | het | 99.3783 | 99.7352 | 99.0240 | 94.2756 | 5273 | 14 | 5276 | 52 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | func_cds | homalt | 99.9810 | 99.9621 | 100.0000 | 20.1424 | 5273 | 2 | 5273 | 0 | 0 | ||