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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62651-62700 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | * | hetalt | 98.5307 | 97.9381 | 99.1304 | 54.1467 | 570 | 12 | 570 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.1229 | 95.5140 | 98.7868 | 83.6312 | 511 | 24 | 570 | 7 | 7 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 81.2517 | 69.3391 | 98.1067 | 37.6609 | 640 | 283 | 570 | 11 | 10 | 90.9091 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9917 | 98.3416 | 99.6503 | 72.5659 | 593 | 10 | 570 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 94.0508 | 90.1716 | 98.2788 | 45.2919 | 578 | 63 | 571 | 10 | 10 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | hetalt | 99.3043 | 98.6183 | 100.0000 | 23.0458 | 571 | 8 | 571 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l125_m0_e0 | het | 97.1036 | 96.9336 | 97.2743 | 89.2313 | 569 | 18 | 571 | 16 | 4 | 25.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 81.2534 | 85.2901 | 77.5815 | 56.2165 | 632 | 109 | 571 | 165 | 144 | 87.2727 | |
| gduggal-bwaplat | SNP | ti | map_l250_m2_e0 | homalt | 49.2891 | 32.7044 | 100.0000 | 95.1810 | 572 | 1177 | 571 | 0 | 0 | ||
| jli-custom | INDEL | * | map_l125_m0_e0 | het | 97.6068 | 97.2743 | 97.9417 | 88.6222 | 571 | 16 | 571 | 12 | 2 | 16.6667 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 51.8064 | 59.5808 | 45.8266 | 64.9803 | 597 | 405 | 571 | 675 | 121 | 17.9259 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | homalt | 92.4410 | 86.9919 | 98.6183 | 84.9532 | 428 | 64 | 571 | 8 | 6 | 75.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 74.8352 | 86.7069 | 65.8228 | 74.0520 | 574 | 88 | 572 | 297 | 264 | 88.8889 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.5311 | 89.0796 | 98.4509 | 45.0331 | 571 | 70 | 572 | 9 | 8 | 88.8889 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m0_e0 | het | 96.0537 | 96.7851 | 95.3333 | 90.9829 | 572 | 19 | 572 | 28 | 2 | 7.1429 | |
| ndellapenna-hhga | INDEL | * | map_l125_m0_e0 | het | 96.9382 | 96.7632 | 97.1138 | 88.6556 | 568 | 19 | 572 | 17 | 2 | 11.7647 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.3102 | 87.5375 | 89.0966 | 84.7216 | 583 | 83 | 572 | 70 | 42 | 60.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2837 | 95.0257 | 99.6516 | 66.3934 | 554 | 29 | 572 | 2 | 2 | 100.0000 | |
| ciseli-custom | INDEL | * | map_l150_m2_e0 | het | 66.9093 | 62.8035 | 71.5895 | 93.6451 | 569 | 337 | 572 | 227 | 132 | 58.1498 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | het | 97.5785 | 97.5460 | 97.6109 | 82.4235 | 318 | 8 | 572 | 14 | 8 | 57.1429 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 58.1718 | 92.1182 | 42.5074 | 70.5677 | 561 | 48 | 573 | 775 | 722 | 93.1613 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6522 | 99.4792 | 99.8258 | 69.0232 | 573 | 3 | 573 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 68.3076 | 76.1255 | 61.9459 | 62.5658 | 558 | 175 | 573 | 352 | 267 | 75.8523 | |
| ghariani-varprowl | INDEL | * | map_l125_m0_e0 | het | 90.1652 | 97.6150 | 83.7719 | 93.3586 | 573 | 14 | 573 | 111 | 27 | 24.3243 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.3738 | 95.1973 | 99.6522 | 66.4723 | 555 | 28 | 573 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 80.0119 | 67.3889 | 98.4536 | 37.0811 | 622 | 301 | 573 | 9 | 9 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.4337 | 89.0390 | 98.2847 | 83.6374 | 593 | 73 | 573 | 10 | 2 | 20.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.4337 | 89.0390 | 98.2847 | 83.6374 | 593 | 73 | 573 | 10 | 2 | 20.0000 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m1_e0 | homalt | 98.6333 | 97.6351 | 99.6522 | 79.5374 | 578 | 14 | 573 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.0493 | 99.4792 | 98.6231 | 67.7222 | 573 | 3 | 573 | 8 | 8 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 70.1454 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | ti | HG002compoundhet | hetalt | 99.5663 | 99.1364 | 100.0000 | 22.9530 | 574 | 5 | 574 | 0 | 0 | ||
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | het | 97.2014 | 97.4446 | 96.9595 | 91.3349 | 572 | 15 | 574 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 69.1854 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.7905 | 86.5506 | 100.0000 | 38.2131 | 547 | 85 | 574 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 68.9860 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m0_e0 | het | 97.2058 | 97.1235 | 97.2881 | 83.7734 | 574 | 17 | 574 | 16 | 4 | 25.0000 | |
| ndellapenna-hhga | SNP | ti | * | hetalt | 98.7952 | 98.6254 | 98.9655 | 47.9354 | 574 | 8 | 574 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.3047 | 95.1389 | 87.7676 | 60.8149 | 548 | 28 | 574 | 80 | 75 | 93.7500 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m0_e0 | het | 96.3955 | 97.6311 | 95.1907 | 86.7502 | 577 | 14 | 574 | 29 | 2 | 6.8966 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 76.0628 | 78.1719 | 74.0645 | 72.1724 | 573 | 160 | 574 | 201 | 147 | 73.1343 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 70.1454 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | het | 90.1770 | 97.4446 | 83.9181 | 93.0825 | 572 | 15 | 574 | 110 | 2 | 1.8182 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5663 | 99.6528 | 99.4801 | 69.4386 | 574 | 2 | 574 | 3 | 1 | 33.3333 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7394 | 99.6528 | 99.8261 | 66.3743 | 574 | 2 | 574 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002complexvar | het | 94.3784 | 89.7744 | 99.4801 | 60.9343 | 597 | 68 | 574 | 3 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6528 | 99.6528 | 99.6528 | 69.7320 | 574 | 2 | 574 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.1364 | 98.2877 | 100.0000 | 18.5552 | 574 | 10 | 575 | 0 | 0 | ||
| jmaeng-gatk | INDEL | * | map_l125_m0_e0 | het | 94.0273 | 97.6150 | 90.6940 | 93.8779 | 573 | 14 | 575 | 59 | 2 | 3.3898 | |