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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37351-37400 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 91.1777 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.6667 | 99.0244 | 94.4186 | 90.8276 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.6667 | 99.0244 | 94.4186 | 90.8276 | 203 | 2 | 203 | 12 | 11 | 91.6667 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.3380 | 98.3399 | 94.4159 | 89.8856 | 1244 | 21 | 1285 | 76 | 19 | 25.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 87.9829 | 82.3708 | 94.4157 | 36.4127 | 5691 | 1218 | 12224 | 723 | 701 | 96.9571 | |
| cchapple-custom | SNP | * | map_l125_m0_e0 | het | 95.3778 | 96.3598 | 94.4157 | 80.7050 | 12203 | 461 | 12207 | 722 | 175 | 24.2382 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.9438 | 95.4802 | 94.4134 | 70.5107 | 169 | 8 | 169 | 10 | 9 | 90.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 71.9593 | 58.1340 | 94.4123 | 59.6109 | 486 | 350 | 490 | 29 | 18 | 62.0690 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.6140 | 98.9214 | 94.4118 | 67.8183 | 642 | 7 | 642 | 38 | 38 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | segdup | * | 96.8249 | 99.3654 | 94.4110 | 96.0107 | 1096 | 7 | 1098 | 65 | 2 | 3.0769 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e1 | het | 94.1854 | 93.9645 | 94.4074 | 84.4472 | 17935 | 1152 | 17961 | 1064 | 575 | 54.0414 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002complexvar | homalt | 87.5090 | 81.5534 | 94.4030 | 66.1616 | 252 | 57 | 253 | 15 | 14 | 93.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1008 | 91.8360 | 94.4009 | 50.5628 | 2531 | 225 | 2529 | 150 | 146 | 97.3333 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | homalt | 87.5010 | 81.5443 | 94.3966 | 88.3212 | 433 | 98 | 438 | 26 | 1 | 3.8462 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7044 | 99.1299 | 94.3948 | 61.8169 | 1595 | 14 | 1583 | 94 | 27 | 28.7234 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m1_e0 | het | 92.6606 | 90.9910 | 94.3925 | 96.3680 | 101 | 10 | 101 | 6 | 3 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l250_m1_e0 | * | 94.8357 | 95.2830 | 94.3925 | 96.0149 | 101 | 5 | 101 | 6 | 1 | 16.6667 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 74.9597 | 62.1622 | 94.3925 | 87.7434 | 46 | 28 | 101 | 6 | 5 | 83.3333 | |
| eyeh-varpipe | SNP | tv | segdup | * | 97.0429 | 99.8476 | 94.3914 | 91.6933 | 8519 | 13 | 8398 | 499 | 11 | 2.2044 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 82.4404 | 73.1758 | 94.3910 | 71.5718 | 1765 | 647 | 1767 | 105 | 26 | 24.7619 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 81.6840 | 71.9940 | 94.3881 | 86.6528 | 964 | 375 | 1396 | 83 | 16 | 19.2771 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| gduggal-bwafb | SNP | tv | HG002compoundhet | het | 96.4922 | 98.6946 | 94.3859 | 59.0165 | 4612 | 61 | 4657 | 277 | 52 | 18.7726 | |
| mlin-fermikit | INDEL | * | map_siren | het | 83.7074 | 75.1996 | 94.3858 | 76.9241 | 3390 | 1118 | 3396 | 202 | 141 | 69.8020 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0601 | 97.7965 | 94.3842 | 73.9824 | 4749 | 107 | 4790 | 285 | 109 | 38.2456 | |
| ghariani-varprowl | SNP | ti | tech_badpromoters | * | 96.5517 | 98.8235 | 94.3820 | 48.8506 | 84 | 1 | 84 | 5 | 1 | 20.0000 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 90.8083 | 87.4974 | 94.3796 | 47.9598 | 37917 | 5418 | 37363 | 2225 | 1830 | 82.2472 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.5741 | 90.8365 | 94.3795 | 65.5301 | 1933 | 195 | 2099 | 125 | 115 | 92.0000 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | * | 95.3104 | 96.2631 | 94.3764 | 89.0069 | 1288 | 50 | 1309 | 78 | 15 | 19.2308 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.7592 | 93.1507 | 94.3756 | 73.2357 | 1836 | 135 | 1829 | 109 | 67 | 61.4679 | |
| gduggal-bwavard | INDEL | D1_5 | func_cds | * | 94.6708 | 94.9686 | 94.3750 | 37.7432 | 151 | 8 | 151 | 9 | 7 | 77.7778 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e1 | * | 81.9397 | 72.4014 | 94.3726 | 87.2379 | 1010 | 385 | 1459 | 87 | 16 | 18.3908 | |
| gduggal-snapfb | INDEL | * | map_siren | het | 93.3260 | 92.3026 | 94.3724 | 79.8904 | 4161 | 347 | 4293 | 256 | 57 | 22.2656 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0147 | 91.6982 | 94.3696 | 64.0306 | 5578 | 505 | 5464 | 326 | 313 | 96.0123 | |
| cchapple-custom | INDEL | * | map_l100_m0_e0 | * | 95.2252 | 96.0972 | 94.3688 | 85.7659 | 1502 | 61 | 1525 | 91 | 22 | 24.1758 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.5067 | 90.7170 | 94.3684 | 38.1735 | 14297 | 1463 | 25772 | 1538 | 1472 | 95.7087 | |
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e0 | het | 94.3662 | 94.3662 | 94.3662 | 94.5636 | 67 | 4 | 67 | 4 | 1 | 25.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l125_m2_e1 | het | 94.3662 | 94.3662 | 94.3662 | 94.6896 | 67 | 4 | 67 | 4 | 1 | 25.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 57.0752 | 40.9091 | 94.3662 | 86.2934 | 135 | 195 | 134 | 8 | 3 | 37.5000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 92.9425 | 91.5612 | 94.3662 | 39.3162 | 217 | 20 | 67 | 4 | 4 | 100.0000 | |
| mlin-fermikit | SNP | tv | tech_badpromoters | * | 93.7063 | 93.0556 | 94.3662 | 43.6508 | 67 | 5 | 67 | 4 | 2 | 50.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m0_e0 | het | 96.6323 | 99.0099 | 94.3662 | 91.7951 | 200 | 2 | 201 | 12 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e1 | * | 94.8302 | 95.3018 | 94.3633 | 90.2818 | 2779 | 137 | 2779 | 166 | 55 | 33.1325 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e0 | het | 94.1306 | 93.9023 | 94.3600 | 84.4255 | 17725 | 1151 | 17751 | 1061 | 573 | 54.0057 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | homalt | 88.8329 | 83.9179 | 94.3595 | 65.4443 | 981 | 188 | 987 | 59 | 53 | 89.8305 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l250_m2_e1 | * | 96.8421 | 99.4595 | 94.3590 | 95.5203 | 184 | 1 | 184 | 11 | 1 | 9.0909 | |