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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18251-18300 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1674 | 98.6667 | 99.6732 | 58.9400 | 1036 | 14 | 1220 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4850 | 99.2977 | 99.6730 | 35.9284 | 3959 | 28 | 3962 | 13 | 12 | 92.3077 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5087 | 99.3453 | 99.6727 | 80.7741 | 607 | 4 | 609 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7661 | 99.8597 | 99.6727 | 76.2860 | 2135 | 3 | 2132 | 7 | 1 | 14.2857 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | homalt | 99.7432 | 99.8141 | 99.6725 | 52.7072 | 13423 | 25 | 13390 | 44 | 44 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7542 | 99.8360 | 99.6725 | 49.7429 | 2435 | 4 | 2435 | 8 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.6997 | 99.7269 | 99.6725 | 54.7543 | 1826 | 5 | 1826 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | SNP | ti | map_l125_m2_e1 | * | 99.5907 | 99.5093 | 99.6723 | 71.0190 | 30419 | 150 | 30415 | 100 | 16 | 16.0000 | |
| hfeng-pmm3 | SNP | ti | map_l125_m2_e0 | * | 99.5898 | 99.5076 | 99.6722 | 70.9814 | 30109 | 149 | 30105 | 99 | 16 | 16.1616 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | homalt | 98.1502 | 96.6740 | 99.6722 | 79.8976 | 3953 | 136 | 3953 | 13 | 6 | 46.1538 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3929 | 99.1153 | 99.6722 | 49.8944 | 4257 | 38 | 4257 | 14 | 3 | 21.4286 | |
| astatham-gatk | INDEL | I1_5 | * | * | 99.4616 | 99.2520 | 99.6722 | 58.6147 | 149537 | 1127 | 149586 | 492 | 402 | 81.7073 | |
| asubramanian-gatk | SNP | * | map_l125_m2_e0 | het | 50.9572 | 34.2281 | 99.6721 | 92.5837 | 10035 | 19283 | 10032 | 33 | 8 | 24.2424 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5905 | 99.5090 | 99.6721 | 83.7116 | 608 | 3 | 608 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5905 | 99.5090 | 99.6721 | 81.7529 | 608 | 3 | 608 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2923 | 98.9154 | 99.6721 | 75.2903 | 912 | 10 | 912 | 3 | 1 | 33.3333 | |
| cchapple-custom | SNP | ti | func_cds | het | 99.7946 | 99.9177 | 99.6718 | 27.6397 | 8497 | 7 | 8504 | 28 | 1 | 3.5714 | |
| raldana-dualsentieon | INDEL | I1_5 | * | * | 99.2891 | 98.9095 | 99.6717 | 56.6470 | 149021 | 1643 | 149065 | 491 | 422 | 85.9470 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.2989 | 98.9290 | 99.6716 | 45.6458 | 4249 | 46 | 4249 | 14 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e0 | homalt | 97.8012 | 96.0000 | 99.6714 | 76.3723 | 16680 | 695 | 16681 | 55 | 21 | 38.1818 | |
| jli-custom | SNP | ti | map_l100_m1_e0 | * | 99.4974 | 99.3240 | 99.6713 | 60.4603 | 47607 | 324 | 47605 | 157 | 50 | 31.8471 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 60.0653 | 42.9847 | 99.6711 | 45.3237 | 337 | 447 | 303 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6711 | 99.6711 | 99.6711 | 66.8845 | 909 | 3 | 909 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.4258 | 99.1817 | 99.6711 | 84.0629 | 606 | 5 | 606 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | homalt | 99.1107 | 98.5566 | 99.6710 | 69.6349 | 16661 | 244 | 16661 | 55 | 40 | 72.7273 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | homalt | 99.4476 | 99.2253 | 99.6709 | 64.2590 | 6660 | 52 | 6663 | 22 | 19 | 86.3636 | |
| gduggal-bwavard | SNP | ti | func_cds | * | 99.3703 | 99.0716 | 99.6707 | 28.1478 | 13659 | 128 | 13622 | 45 | 15 | 33.3333 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6500 | 99.6294 | 99.6706 | 40.2309 | 6720 | 25 | 6656 | 22 | 11 | 50.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6705 | 99.6705 | 99.6705 | 66.2895 | 4840 | 16 | 4840 | 16 | 13 | 81.2500 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.3600 | 99.0514 | 99.6705 | 83.4424 | 1253 | 12 | 1210 | 4 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | map_l150_m2_e0 | het | 75.7150 | 61.0434 | 99.6704 | 79.9741 | 7863 | 5018 | 7863 | 26 | 2 | 7.6923 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4518 | 99.2341 | 99.6703 | 69.5244 | 907 | 7 | 907 | 3 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.3201 | 98.9723 | 99.6702 | 83.1011 | 1252 | 13 | 1209 | 4 | 0 | 0.0000 | |
| ckim-isaac | SNP | tv | map_l125_m2_e0 | * | 70.8343 | 54.9397 | 99.6700 | 73.8494 | 9059 | 7430 | 9061 | 30 | 9 | 30.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.2605 | 98.8543 | 99.6700 | 82.3014 | 604 | 7 | 604 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | * | map_l125_m2_e1 | het | 77.3202 | 63.1579 | 99.6699 | 75.2966 | 18720 | 10920 | 18722 | 62 | 10 | 16.1290 | |
| ckim-isaac | SNP | * | map_l150_m0_e0 | het | 72.5569 | 57.0403 | 99.6699 | 83.7697 | 4529 | 3411 | 4529 | 15 | 2 | 13.3333 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8202 | 97.9852 | 99.6695 | 59.8782 | 17800 | 366 | 17792 | 59 | 52 | 88.1356 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8202 | 97.9852 | 99.6695 | 59.8782 | 17800 | 366 | 17792 | 59 | 52 | 88.1356 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e0 | * | 98.9623 | 98.2651 | 99.6695 | 73.4684 | 11158 | 197 | 11158 | 37 | 17 | 45.9459 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | homalt | 97.0877 | 94.6363 | 99.6694 | 78.6440 | 6934 | 393 | 6935 | 23 | 14 | 60.8696 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1776 | 98.6907 | 99.6694 | 83.8924 | 603 | 8 | 603 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l150_m2_e1 | het | 99.0483 | 98.4349 | 99.6693 | 74.6001 | 7233 | 115 | 7233 | 24 | 9 | 37.5000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7380 | 99.8068 | 99.6692 | 75.6445 | 3616 | 7 | 3616 | 12 | 6 | 50.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1767 | 98.6892 | 99.6691 | 48.1704 | 1807 | 24 | 1807 | 6 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 92.9012 | 86.9942 | 99.6689 | 73.6704 | 301 | 45 | 301 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9791 | 98.2989 | 99.6689 | 57.4619 | 12308 | 213 | 12341 | 41 | 28 | 68.2927 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m1_e0 | homalt | 73.4146 | 58.1081 | 99.6689 | 88.6509 | 301 | 217 | 301 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.1774 | 98.6907 | 99.6689 | 83.7284 | 603 | 8 | 602 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | SNP | ti | map_l125_m1_e0 | * | 99.5837 | 99.4989 | 99.6687 | 69.3283 | 29188 | 147 | 29184 | 97 | 16 | 16.4948 | |