PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64901-64950 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | * | map_l150_m1_e0 | het | 93.9968 | 98.4795 | 89.9044 | 93.5685 | 842 | 13 | 846 | 95 | 6 | 6.3158 | |
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.0227 | 98.3645 | 82.9851 | 68.6916 | 842 | 14 | 834 | 171 | 169 | 98.8304 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2348 | 98.9437 | 99.5277 | 84.3986 | 843 | 9 | 843 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | * | HG002compoundhet | hetalt | 98.8856 | 97.7958 | 100.0000 | 22.8728 | 843 | 19 | 843 | 0 | 0 | ||
| ckim-gatk | SNP | tv | HG002compoundhet | hetalt | 98.8856 | 97.7958 | 100.0000 | 22.8728 | 843 | 19 | 843 | 0 | 0 | ||
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.9423 | 99.0599 | 98.8249 | 87.6792 | 843 | 8 | 841 | 10 | 8 | 80.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 96.2945 | 98.3664 | 94.3080 | 90.1657 | 843 | 14 | 845 | 51 | 5 | 9.8039 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4690 | 98.9437 | 100.0000 | 83.2738 | 843 | 9 | 843 | 0 | 0 | ||
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.0441 | 98.5965 | 89.8936 | 70.5698 | 843 | 12 | 845 | 95 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e1 | * | 96.3932 | 96.8966 | 95.8951 | 88.3455 | 843 | 27 | 841 | 36 | 7 | 19.4444 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | homalt | 79.2387 | 69.4399 | 92.2574 | 47.0554 | 843 | 371 | 846 | 71 | 37 | 52.1127 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l125_m2_e1 | * | 97.9652 | 96.8966 | 99.0577 | 82.2719 | 843 | 27 | 841 | 8 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.6549 | 98.5965 | 98.7135 | 57.7151 | 843 | 12 | 844 | 11 | 3 | 27.2727 | |
| gduggal-bwaplat | SNP | tv | map_l250_m1_e0 | * | 48.2541 | 31.8474 | 99.5277 | 97.7346 | 843 | 1804 | 843 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | * | map_l150_m1_e0 | het | 88.6308 | 98.5965 | 80.4948 | 92.7959 | 843 | 12 | 846 | 205 | 44 | 21.4634 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1765 | 99.0599 | 99.2933 | 88.5872 | 843 | 8 | 843 | 6 | 4 | 66.6667 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | het | 92.3836 | 93.0464 | 91.7301 | 91.9202 | 843 | 63 | 843 | 76 | 49 | 64.4737 | |
| jmaeng-gatk | SNP | tv | HG002compoundhet | hetalt | 98.9449 | 97.9118 | 100.0000 | 22.9224 | 844 | 18 | 844 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2357 | 98.7135 | 99.7636 | 53.9967 | 844 | 11 | 844 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | HG002compoundhet | hetalt | 98.9449 | 97.9118 | 100.0000 | 22.9224 | 844 | 18 | 844 | 0 | 0 | ||
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.6558 | 99.1774 | 98.1395 | 88.0655 | 844 | 7 | 844 | 16 | 6 | 37.5000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5867 | 99.2941 | 99.8810 | 43.2816 | 844 | 6 | 839 | 1 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2357 | 98.7135 | 99.7636 | 54.0717 | 844 | 11 | 844 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5283 | 99.0610 | 100.0000 | 84.2066 | 844 | 8 | 844 | 0 | 0 | ||
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8869 | 98.7135 | 99.0610 | 53.7961 | 844 | 11 | 844 | 8 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | segdup | homalt | 85.4420 | 87.9167 | 83.1028 | 93.1884 | 844 | 116 | 841 | 171 | 150 | 87.7193 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1798 | 99.1774 | 99.1822 | 88.3012 | 844 | 7 | 849 | 7 | 7 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m0_e0 | * | 98.1974 | 97.7984 | 98.5998 | 82.9317 | 844 | 19 | 845 | 12 | 3 | 25.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.1183 | 98.3683 | 99.8798 | 44.5703 | 844 | 14 | 831 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2357 | 98.7135 | 99.7636 | 51.8223 | 844 | 11 | 844 | 2 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.4218 | 99.0610 | 97.7907 | 85.5292 | 844 | 8 | 841 | 19 | 14 | 73.6842 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.4854 | 99.1784 | 76.6727 | 86.8957 | 845 | 7 | 848 | 258 | 212 | 82.1705 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m2_e0 | * | 98.8304 | 98.5998 | 99.0621 | 86.7258 | 845 | 12 | 845 | 8 | 1 | 12.5000 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.1784 | 99.8818 | 84.5845 | 845 | 7 | 845 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1784 | 98.8304 | 99.5289 | 53.9837 | 845 | 10 | 845 | 4 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 86.6667 | 0.0000 | 0.0000 | 845 | 130 | 0 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.8315 | 98.5998 | 99.0643 | 85.4245 | 845 | 12 | 847 | 8 | 2 | 25.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5875 | 99.1784 | 100.0000 | 85.2685 | 845 | 7 | 845 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 95.5921 | 97.9143 | 93.3775 | 89.4196 | 845 | 18 | 846 | 60 | 5 | 8.3333 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 97.6916 | 98.5998 | 96.8000 | 90.6836 | 845 | 12 | 847 | 28 | 3 | 10.7143 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.1784 | 99.8818 | 84.7237 | 845 | 7 | 845 | 1 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.1784 | 99.8818 | 84.5845 | 845 | 7 | 845 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e0 | * | 98.7150 | 98.5998 | 98.8304 | 87.2578 | 845 | 12 | 845 | 10 | 2 | 20.0000 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5875 | 99.1784 | 100.0000 | 84.7445 | 845 | 7 | 845 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 79.8362 | 74.7126 | 85.7143 | 54.9550 | 845 | 286 | 600 | 100 | 84 | 84.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4703 | 99.1784 | 99.7639 | 84.6391 | 845 | 7 | 845 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2366 | 98.8304 | 99.6462 | 50.2931 | 845 | 10 | 845 | 3 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m0_e0 | * | 98.0857 | 97.9143 | 98.2578 | 84.7960 | 845 | 18 | 846 | 15 | 6 | 40.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4703 | 99.1784 | 99.7639 | 83.7209 | 845 | 7 | 845 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7642 | 99.5294 | 100.0000 | 48.4461 | 846 | 4 | 846 | 0 | 0 | ||