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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64101-64150 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0579 | 95.3612 | 98.8161 | 48.1800 | 1254 | 61 | 1252 | 15 | 10 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2583 | 98.7709 | 99.7505 | 77.4015 | 6027 | 75 | 5998 | 15 | 5 | 33.3333 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6837 | 98.6418 | 98.7256 | 72.6343 | 1162 | 16 | 1162 | 15 | 15 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.9898 | 93.7500 | 94.2308 | 79.6557 | 270 | 18 | 245 | 15 | 9 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m0_e0 | * | 94.4979 | 97.1591 | 91.9786 | 94.4724 | 171 | 5 | 172 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.1905 | 100.0000 | 61.5385 | 74.6753 | 24 | 0 | 24 | 15 | 15 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.7029 | 96.5935 | 98.8381 | 61.3357 | 1276 | 45 | 1276 | 15 | 13 | 86.6667 | |
| jlack-gatk | SNP | tv | map_siren | homalt | 99.5956 | 99.2807 | 99.9124 | 53.4780 | 17116 | 124 | 17113 | 15 | 10 | 66.6667 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.2361 | 89.5703 | 99.4147 | 34.3662 | 2439 | 284 | 2548 | 15 | 14 | 93.3333 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | het | 98.1285 | 98.0117 | 98.2456 | 88.8001 | 838 | 17 | 840 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | het | 98.1776 | 98.0132 | 98.3425 | 89.4239 | 888 | 18 | 890 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m2_e1 | het | 98.1579 | 97.9437 | 98.3731 | 89.4713 | 905 | 19 | 907 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | segdup | * | 99.1762 | 98.9437 | 99.4099 | 94.0244 | 2529 | 27 | 2527 | 15 | 7 | 46.6667 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | homalt | 99.6883 | 99.7105 | 99.6661 | 69.9826 | 4478 | 13 | 4478 | 15 | 6 | 40.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7447 | 99.7365 | 99.7529 | 55.2418 | 6056 | 16 | 6056 | 15 | 15 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m0_e0 | * | 97.7834 | 98.4436 | 97.1319 | 90.8917 | 506 | 8 | 508 | 15 | 4 | 26.6667 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| hfeng-pmm1 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3051 | 98.7492 | 99.8673 | 37.3573 | 11290 | 143 | 11287 | 15 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | homalt | 99.7619 | 99.7170 | 99.8069 | 63.0178 | 7752 | 22 | 7752 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e0 | homalt | 99.7833 | 99.7637 | 99.8030 | 73.2106 | 7598 | 18 | 7598 | 15 | 6 | 40.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | homalt | 99.7855 | 99.7660 | 99.8049 | 73.2531 | 7675 | 18 | 7675 | 15 | 6 | 40.0000 | |
| hfeng-pmm2 | INDEL | * | segdup | het | 98.9768 | 98.9768 | 98.9768 | 94.9944 | 1451 | 15 | 1451 | 15 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1370 | 97.3361 | 96.9388 | 70.2670 | 475 | 13 | 475 | 15 | 11 | 73.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.0938 | 96.0938 | 96.0938 | 84.8401 | 369 | 15 | 369 | 15 | 2 | 13.3333 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m2_e0 | * | 88.2979 | 92.2222 | 84.6939 | 93.9840 | 83 | 7 | 83 | 15 | 3 | 20.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 88.5572 | 91.7526 | 85.5769 | 93.7799 | 89 | 8 | 89 | 15 | 3 | 20.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_siren | * | 91.3733 | 93.0070 | 89.7959 | 93.4812 | 133 | 10 | 132 | 15 | 1 | 6.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.1918 | 84.5070 | 80.0000 | 56.3953 | 60 | 11 | 60 | 15 | 15 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1836 | 98.6234 | 99.7502 | 77.6187 | 6018 | 84 | 5989 | 15 | 7 | 46.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8835 | 96.7762 | 99.0164 | 72.2070 | 1561 | 52 | 1510 | 15 | 11 | 73.3333 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1370 | 98.6663 | 99.6121 | 66.8126 | 3847 | 52 | 3852 | 15 | 10 | 66.6667 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.3952 | 89.8785 | 99.3897 | 87.2026 | 2442 | 275 | 2443 | 15 | 3 | 20.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.4916 | 85.0340 | 99.0106 | 87.6728 | 1500 | 264 | 1501 | 15 | 3 | 20.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5075 | 99.0450 | 97.9757 | 72.8173 | 726 | 7 | 726 | 15 | 12 | 80.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5350 | 99.4806 | 99.5894 | 54.0098 | 3639 | 19 | 3638 | 15 | 5 | 33.3333 | |
| jlack-gatk | INDEL | D16_PLUS | map_siren | het | 87.6125 | 93.5897 | 82.3529 | 95.8313 | 73 | 5 | 70 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 87.2180 | 96.6667 | 79.4521 | 92.0131 | 58 | 2 | 58 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.4254 | 90.8213 | 96.1832 | 73.6419 | 376 | 38 | 378 | 15 | 8 | 53.3333 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.2767 | 87.0680 | 98.1481 | 43.3170 | 781 | 116 | 795 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.0761 | 97.2854 | 98.8798 | 74.4855 | 1326 | 37 | 1324 | 15 | 8 | 53.3333 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9816 | 80.4878 | 81.4815 | 72.4490 | 66 | 16 | 66 | 15 | 14 | 93.3333 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.8087 | 91.4498 | 94.2085 | 69.3853 | 246 | 23 | 244 | 15 | 7 | 46.6667 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.3491 | 89.2617 | 89.4366 | 73.6549 | 133 | 16 | 127 | 15 | 9 | 60.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5635 | 99.5014 | 99.6257 | 47.9205 | 3991 | 20 | 3992 | 15 | 4 | 26.6667 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e0 | homalt | 99.7949 | 99.6723 | 99.9179 | 61.7916 | 18249 | 60 | 18249 | 15 | 15 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e1 | homalt | 99.7970 | 99.6756 | 99.9187 | 61.7788 | 18434 | 60 | 18434 | 15 | 15 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e1 | het | 97.7791 | 96.0897 | 99.5290 | 88.4572 | 3170 | 129 | 3170 | 15 | 6 | 40.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.3257 | 95.6607 | 97.0000 | 82.2127 | 485 | 22 | 485 | 15 | 15 | 100.0000 | |