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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16751-16800 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | I1_5 | segdup | het | 98.6887 | 98.8848 | 98.4934 | 93.5006 | 532 | 6 | 523 | 8 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | HG002compoundhet | * | 99.3502 | 98.8847 | 99.8202 | 41.8705 | 25534 | 288 | 25531 | 46 | 39 | 84.7826 | |
| egarrison-hhga | SNP | tv | map_l100_m2_e0 | het | 99.3093 | 98.8845 | 99.7379 | 65.3478 | 15601 | 176 | 15601 | 41 | 13 | 31.7073 | |
| qzeng-custom | INDEL | D1_5 | * | het | 98.6409 | 98.8844 | 98.3986 | 58.7330 | 86597 | 977 | 96103 | 1564 | 1050 | 67.1355 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2044 | 98.8843 | 99.5266 | 75.4930 | 1684 | 19 | 1682 | 8 | 1 | 12.5000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9127 | 98.8843 | 98.9412 | 74.7999 | 1684 | 19 | 1682 | 18 | 4 | 22.2222 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.6799 | 98.8842 | 98.4765 | 86.4946 | 709 | 8 | 711 | 11 | 3 | 27.2727 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.7162 | 98.8842 | 96.5753 | 51.3333 | 709 | 8 | 705 | 25 | 23 | 92.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | * | 95.1584 | 98.8841 | 91.7032 | 81.2684 | 16305 | 184 | 16303 | 1475 | 90 | 6.1017 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | het | 99.2454 | 98.8841 | 99.6094 | 71.5149 | 18874 | 213 | 18870 | 74 | 18 | 24.3243 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e0 | * | 98.6338 | 98.8840 | 98.3849 | 89.8595 | 7797 | 88 | 7797 | 128 | 16 | 12.5000 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | * | 98.7276 | 98.8840 | 98.5716 | 78.3574 | 6557 | 74 | 6556 | 95 | 18 | 18.9474 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9984 | 98.8832 | 99.1137 | 59.5275 | 15584 | 176 | 15433 | 138 | 107 | 77.5362 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8987 | 98.8832 | 98.9142 | 71.1221 | 17620 | 199 | 17218 | 189 | 154 | 81.4815 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2155 | 98.8831 | 99.5502 | 52.7537 | 2656 | 30 | 2656 | 12 | 1 | 8.3333 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | het | 92.1348 | 98.8831 | 86.2488 | 87.0469 | 7171 | 81 | 7169 | 1143 | 59 | 5.1619 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3977 | 98.8829 | 99.9179 | 55.5579 | 14605 | 165 | 14609 | 12 | 3 | 25.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.4177 | 98.8829 | 99.9582 | 72.7717 | 2390 | 27 | 2394 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | * | 96.1886 | 98.8828 | 93.6372 | 80.3034 | 46201 | 522 | 46195 | 3139 | 239 | 7.6139 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3683 | 98.8824 | 99.8589 | 49.4773 | 4247 | 48 | 4247 | 6 | 0 | 0.0000 | |
| jli-custom | SNP | * | map_l150_m2_e1 | * | 99.1717 | 98.8823 | 99.4628 | 73.1735 | 31850 | 360 | 31847 | 172 | 59 | 34.3023 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e1 | homalt | 99.1004 | 98.8820 | 99.3197 | 66.7481 | 9198 | 104 | 9198 | 63 | 40 | 63.4921 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | homalt | 99.3858 | 98.8816 | 99.8952 | 58.5121 | 26701 | 302 | 26701 | 28 | 22 | 78.5714 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4277 | 98.8814 | 99.9800 | 49.5688 | 9989 | 113 | 9998 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2824 | 98.8813 | 99.6867 | 44.4483 | 1591 | 18 | 1591 | 5 | 1 | 20.0000 | |
| gduggal-bwafb | SNP | ti | map_l125_m2_e1 | * | 98.9476 | 98.8812 | 99.0140 | 74.0560 | 30227 | 342 | 30227 | 301 | 85 | 28.2392 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | * | 99.1938 | 98.8812 | 99.5083 | 54.2253 | 32349 | 366 | 32179 | 159 | 100 | 62.8931 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9233 | 98.8811 | 98.9655 | 57.0313 | 19973 | 226 | 19994 | 209 | 5 | 2.3923 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4224 | 98.8809 | 99.9700 | 61.6808 | 9984 | 113 | 9996 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l100_m2_e1 | homalt | 99.3913 | 98.8807 | 99.9071 | 60.0864 | 18287 | 207 | 18287 | 17 | 15 | 88.2353 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e0 | * | 99.3576 | 98.8807 | 99.8392 | 63.3838 | 48413 | 548 | 48415 | 78 | 40 | 51.2821 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.0571 | 98.8804 | 97.2473 | 44.6639 | 11305 | 128 | 11305 | 320 | 3 | 0.9375 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3527 | 98.8800 | 99.8300 | 48.5551 | 11742 | 133 | 11747 | 20 | 11 | 55.0000 | |
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | homalt | 99.3125 | 98.8799 | 99.7489 | 85.0633 | 1589 | 18 | 1589 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | ti | map_l250_m1_e0 | homalt | 99.3746 | 98.8799 | 99.8743 | 84.2895 | 1589 | 18 | 1589 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9183 | 98.8798 | 98.9568 | 83.1237 | 1324 | 15 | 1328 | 14 | 4 | 28.5714 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | * | 96.7576 | 98.8796 | 94.7247 | 79.7203 | 29919 | 339 | 29915 | 1666 | 151 | 9.0636 | |
| jli-custom | SNP | ti | map_l100_m0_e0 | * | 99.2096 | 98.8792 | 99.5422 | 63.1044 | 21527 | 244 | 21527 | 99 | 35 | 35.3535 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1570 | 98.8791 | 99.4364 | 71.0422 | 1235 | 14 | 1235 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1570 | 98.8791 | 99.4364 | 71.0422 | 1235 | 14 | 1235 | 7 | 4 | 57.1429 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1730 | 98.8786 | 99.4691 | 69.5432 | 1499 | 17 | 1499 | 8 | 2 | 25.0000 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | het | 99.0464 | 98.8782 | 99.2152 | 59.4430 | 3085 | 35 | 3034 | 24 | 18 | 75.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3754 | 98.8773 | 99.8785 | 57.1429 | 2466 | 28 | 2466 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | het | 99.2035 | 98.8772 | 99.5320 | 69.1542 | 13826 | 157 | 13823 | 65 | 16 | 24.6154 | |
| dgrover-gatk | SNP | ti | map_l150_m0_e0 | homalt | 99.3450 | 98.8772 | 99.8172 | 73.4053 | 2730 | 31 | 2730 | 5 | 4 | 80.0000 | |
| 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 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.9147 | 98.8772 | 98.9521 | 56.9032 | 1321 | 15 | 1322 | 14 | 5 | 35.7143 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3785 | 98.8765 | 99.8856 | 58.5898 | 55006 | 625 | 54996 | 63 | 10 | 15.8730 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4350 | 98.8764 | 100.0000 | 79.4632 | 176 | 2 | 176 | 0 | 0 | ||