PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70801-70850 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| jmaeng-gatk | INDEL | D6_15 | * | het | 98.5809 | 99.1891 | 97.9801 | 63.8389 | 11498 | 94 | 11448 | 236 | 191 | 80.9322 | |
| gduggal-bwafb | INDEL | D1_5 | * | * | 98.5809 | 98.0538 | 99.1138 | 59.5290 | 143889 | 2856 | 144727 | 1294 | 903 | 69.7836 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m2_e1 | het | 98.5813 | 97.3804 | 99.8121 | 58.3672 | 18587 | 500 | 18589 | 35 | 4 | 11.4286 | |
| astatham-gatk | SNP | tv | HG002compoundhet | het | 98.5818 | 97.4321 | 99.7590 | 55.5988 | 4553 | 120 | 4553 | 11 | 11 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5824 | 98.9009 | 98.2659 | 73.3042 | 30145 | 335 | 29694 | 524 | 432 | 82.4427 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5824 | 99.3478 | 97.8288 | 50.3389 | 4722 | 31 | 4731 | 105 | 95 | 90.4762 | |
| jpowers-varprowl | SNP | * | map_siren | * | 98.5825 | 98.3751 | 98.7907 | 60.8110 | 143852 | 2376 | 143855 | 1761 | 441 | 25.0426 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5825 | 98.4556 | 98.7097 | 83.9478 | 765 | 12 | 765 | 10 | 1 | 10.0000 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e1 | het | 98.5825 | 99.2725 | 97.9021 | 91.2682 | 3275 | 24 | 3220 | 69 | 4 | 5.7971 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5826 | 97.8702 | 99.3056 | 66.7018 | 19162 | 417 | 19162 | 134 | 6 | 4.4776 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5826 | 97.8702 | 99.3056 | 66.7018 | 19162 | 417 | 19162 | 134 | 6 | 4.4776 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5827 | 98.8772 | 98.2900 | 65.3261 | 1321 | 15 | 1322 | 23 | 8 | 34.7826 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5829 | 98.9638 | 98.2048 | 63.2584 | 35052 | 367 | 35066 | 641 | 28 | 4.3682 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.5830 | 99.8064 | 97.3892 | 55.2704 | 5670 | 11 | 5670 | 152 | 151 | 99.3421 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e1 | * | 98.5832 | 98.4270 | 98.7399 | 86.2184 | 2190 | 35 | 2194 | 28 | 6 | 21.4286 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5836 | 98.3269 | 98.8417 | 84.3252 | 764 | 13 | 768 | 9 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | * | 98.5836 | 98.0175 | 99.1563 | 57.7225 | 4697 | 95 | 4701 | 40 | 39 | 97.5000 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5839 | 97.8372 | 99.3421 | 60.4167 | 769 | 17 | 755 | 5 | 2 | 40.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5840 | 97.5019 | 99.6904 | 61.7751 | 1288 | 33 | 1288 | 4 | 2 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | * | 98.5850 | 98.3151 | 98.8564 | 86.6789 | 2159 | 37 | 2161 | 25 | 8 | 32.0000 | |
| ckim-vqsr | SNP | * | segdup | homalt | 98.5850 | 97.2820 | 99.9235 | 88.7282 | 10451 | 292 | 10451 | 8 | 8 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | segdup | * | 98.5851 | 97.9148 | 99.2647 | 92.9825 | 1080 | 23 | 1080 | 8 | 3 | 37.5000 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.5852 | 99.2612 | 97.9184 | 64.7490 | 55220 | 411 | 55320 | 1176 | 260 | 22.1088 | |
| jmaeng-gatk | INDEL | * | map_l150_m1_e0 | homalt | 98.5854 | 98.0519 | 99.1247 | 88.7105 | 453 | 9 | 453 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.5857 | 99.1728 | 98.0054 | 86.8862 | 1079 | 9 | 1081 | 22 | 5 | 22.7273 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5858 | 97.9822 | 99.1968 | 53.1729 | 15442 | 318 | 15438 | 125 | 48 | 38.4000 | |
| gduggal-bwavard | SNP | tv | map_siren | homalt | 98.5863 | 97.3028 | 99.9041 | 54.3761 | 16775 | 465 | 16665 | 16 | 12 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5864 | 98.0186 | 99.1607 | 45.3115 | 841 | 17 | 827 | 7 | 4 | 57.1429 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5866 | 97.7804 | 99.4062 | 85.3845 | 837 | 19 | 837 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5873 | 97.9738 | 99.2084 | 62.4678 | 3820 | 79 | 3760 | 30 | 27 | 90.0000 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e0 | * | 98.5876 | 98.4517 | 98.7238 | 86.1051 | 2162 | 34 | 2166 | 28 | 6 | 21.4286 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.5877 | 98.1945 | 98.9841 | 59.2905 | 10714 | 197 | 10620 | 109 | 34 | 31.1927 | |
| gduggal-snapfb | SNP | ti | map_siren | * | 98.5881 | 98.6618 | 98.5145 | 58.3905 | 99012 | 1343 | 99014 | 1493 | 523 | 35.0301 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | * | 98.5884 | 99.6578 | 97.5418 | 78.8388 | 31743 | 109 | 30831 | 777 | 30 | 3.8610 | |
| dgrover-gatk | SNP | tv | map_l150_m0_e0 | * | 98.5887 | 98.7542 | 98.4237 | 82.7837 | 4122 | 52 | 4121 | 66 | 10 | 15.1515 | |
| gduggal-bwafb | SNP | ti | map_l125_m1_e0 | het | 98.5889 | 98.6861 | 98.4920 | 74.2606 | 18026 | 240 | 18026 | 276 | 77 | 27.8986 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5890 | 98.0226 | 99.1620 | 62.9783 | 347 | 7 | 355 | 3 | 1 | 33.3333 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5894 | 97.8804 | 99.3088 | 61.8852 | 1293 | 28 | 1293 | 9 | 7 | 77.7778 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5900 | 99.3241 | 97.8667 | 64.6435 | 2939 | 20 | 2936 | 64 | 4 | 6.2500 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5901 | 97.6240 | 99.5756 | 74.7725 | 8916 | 217 | 8916 | 38 | 5 | 13.1579 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5901 | 97.6240 | 99.5756 | 74.7725 | 8916 | 217 | 8916 | 38 | 5 | 13.1579 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | * | 98.5906 | 98.2998 | 98.8831 | 88.2437 | 2833 | 49 | 2833 | 32 | 7 | 21.8750 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5907 | 97.6311 | 99.5693 | 27.5733 | 1154 | 28 | 1156 | 5 | 5 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l125_m2_e0 | homalt | 98.5915 | 97.2222 | 100.0000 | 89.4578 | 35 | 1 | 35 | 0 | 0 | ||
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 98.5915 | 97.2222 | 100.0000 | 88.5621 | 35 | 1 | 35 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | * | map_l150_m1_e0 | homalt | 98.5915 | 98.4848 | 98.6985 | 87.6408 | 455 | 7 | 455 | 6 | 4 | 66.6667 | |