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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15601-15650 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5168 | 99.0808 | 99.9567 | 54.7993 | 27702 | 257 | 27701 | 12 | 5 | 41.6667 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | het | 92.9966 | 99.0806 | 87.6165 | 84.4986 | 10346 | 96 | 10344 | 1462 | 81 | 5.5404 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0693 | 99.0805 | 97.0787 | 69.6866 | 431 | 4 | 432 | 13 | 7 | 53.8462 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | homalt | 96.6035 | 99.0803 | 94.2476 | 38.7254 | 7326 | 68 | 7340 | 448 | 160 | 35.7143 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.1507 | 99.0803 | 97.2383 | 83.3124 | 9049 | 84 | 9049 | 257 | 10 | 3.8911 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.1507 | 99.0803 | 97.2383 | 83.3124 | 9049 | 84 | 9049 | 257 | 10 | 3.8911 | |
| dgrover-gatk | SNP | ti | map_l125_m0_e0 | het | 98.8408 | 99.0802 | 98.6026 | 80.1354 | 8187 | 76 | 8185 | 116 | 25 | 21.5517 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m1_e0 | * | 98.7075 | 99.0801 | 98.3378 | 83.1572 | 1831 | 17 | 1834 | 31 | 4 | 12.9032 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2442 | 99.0799 | 99.4092 | 87.9842 | 2692 | 25 | 2692 | 16 | 14 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002complexvar | * | 99.3818 | 99.0798 | 99.6856 | 52.9504 | 33055 | 307 | 32342 | 102 | 66 | 64.7059 | |
| jmaeng-gatk | SNP | tv | * | homalt | 99.5328 | 99.0793 | 99.9904 | 20.3157 | 373651 | 3472 | 373637 | 36 | 23 | 63.8889 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m0_e0 | * | 97.3834 | 99.0792 | 95.7447 | 89.2325 | 538 | 5 | 540 | 24 | 3 | 12.5000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m0_e0 | * | 98.6285 | 99.0792 | 98.1818 | 85.0543 | 538 | 5 | 540 | 10 | 3 | 30.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 98.9891 | 99.0792 | 98.8991 | 83.0903 | 538 | 5 | 539 | 6 | 3 | 50.0000 | |
| jli-custom | INDEL | * | * | * | 99.3675 | 99.0788 | 99.6580 | 57.6935 | 341368 | 3174 | 341213 | 1171 | 951 | 81.2126 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e1 | * | 99.2571 | 99.0784 | 99.4365 | 70.8435 | 46767 | 435 | 46761 | 265 | 170 | 64.1509 | |
| gduggal-bwavard | SNP | * | * | het | 99.2301 | 99.0784 | 99.3822 | 26.2938 | 1856334 | 17267 | 1845056 | 11469 | 3208 | 27.9711 | |
| jli-custom | SNP | tv | map_l125_m2_e0 | * | 99.2648 | 99.0782 | 99.4521 | 69.0688 | 16337 | 152 | 16336 | 90 | 26 | 28.8889 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | homalt | 99.4382 | 99.0780 | 99.8010 | 69.8334 | 6018 | 56 | 6018 | 12 | 12 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5298 | 99.0776 | 99.9861 | 69.5819 | 21697 | 202 | 21585 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_l100_m2_e0 | homalt | 99.4381 | 99.0770 | 99.8019 | 64.9829 | 18140 | 169 | 18140 | 36 | 28 | 77.7778 | |
| bgallagher-sentieon | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2848 | 99.0764 | 99.4941 | 66.4545 | 4720 | 44 | 4720 | 24 | 5 | 20.8333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9393 | 99.0763 | 96.8281 | 71.9883 | 5792 | 54 | 5739 | 188 | 172 | 91.4894 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.9393 | 99.0763 | 96.8281 | 71.9883 | 5792 | 54 | 5739 | 188 | 172 | 91.4894 | |
| hfeng-pmm1 | SNP | ti | map_l100_m2_e1 | het | 99.4037 | 99.0762 | 99.7333 | 64.8020 | 30674 | 286 | 30667 | 82 | 20 | 24.3902 | |
| ghariani-varprowl | SNP | ti | map_l100_m2_e1 | het | 98.1632 | 99.0762 | 97.2668 | 74.0488 | 30674 | 286 | 30676 | 862 | 158 | 18.3295 | |
| egarrison-hhga | INDEL | I1_5 | * | * | 99.2965 | 99.0761 | 99.5179 | 56.5802 | 149272 | 1392 | 149236 | 723 | 442 | 61.1342 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | het | 94.5222 | 99.0756 | 90.3690 | 83.8291 | 29366 | 274 | 29360 | 3129 | 222 | 7.0949 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.2575 | 99.0755 | 93.5953 | 68.1797 | 643 | 6 | 643 | 44 | 44 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l125_m2_e0 | homalt | 99.4872 | 99.0755 | 99.9023 | 65.7910 | 11253 | 105 | 11253 | 11 | 10 | 90.9091 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | homalt | 99.5212 | 99.0753 | 99.9711 | 52.6911 | 10500 | 98 | 10378 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.9120 | 99.0753 | 98.7492 | 88.2866 | 1500 | 14 | 1500 | 19 | 8 | 42.1053 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5512 | 99.0752 | 98.0327 | 69.1780 | 30855 | 288 | 31094 | 624 | 24 | 3.8462 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5512 | 99.0752 | 98.0327 | 69.1780 | 30855 | 288 | 31094 | 624 | 24 | 3.8462 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4777 | 99.0751 | 99.8835 | 34.2649 | 1714 | 16 | 1715 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4269 | 99.0751 | 99.7811 | 30.6904 | 1714 | 16 | 1823 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | SNP | * | HG002compoundhet | * | 97.9194 | 99.0744 | 96.7911 | 45.9764 | 25583 | 239 | 25699 | 852 | 222 | 26.0563 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5088 | 99.0743 | 99.9471 | 55.8025 | 17018 | 159 | 17015 | 9 | 6 | 66.6667 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.8044 | 107 | 1 | 105 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.6985 | 107 | 1 | 105 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.0906 | 99.0741 | 99.1071 | 88.6525 | 107 | 1 | 111 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 79.9728 | 107 | 1 | 147 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 81.1151 | 107 | 1 | 105 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.3490 | 99.0741 | 99.6255 | 78.1237 | 535 | 5 | 532 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.0741 | 99.0741 | 99.0741 | 82.5186 | 535 | 5 | 535 | 5 | 3 | 60.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4544 | 99.0741 | 99.8377 | 37.0787 | 7383 | 69 | 7380 | 12 | 3 | 25.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4812 | 99.0741 | 99.8917 | 37.3686 | 7383 | 69 | 7380 | 8 | 2 | 25.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5349 | 99.0741 | 100.0000 | 80.7339 | 107 | 1 | 105 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5044 | 99.0738 | 99.9389 | 63.8841 | 11445 | 107 | 11445 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5044 | 99.0738 | 99.9389 | 63.8841 | 11445 | 107 | 11445 | 7 | 7 | 100.0000 | |