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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20801-20850 / 86044 show all | |||||||||||||||
| jli-custom | SNP | * | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 43.3225 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | tv | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 43.3225 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | het | 62.5646 | 57.7025 | 68.3215 | 96.1752 | 869 | 637 | 867 | 402 | 13 | 3.2338 | |
| ckim-dragen | INDEL | * | map_l150_m2_e0 | het | 95.2851 | 95.9161 | 94.6623 | 92.0056 | 869 | 37 | 869 | 49 | 5 | 10.2041 | |
| ckim-dragen | SNP | tv | * | hetalt | 99.3162 | 99.7704 | 98.8662 | 49.3103 | 869 | 2 | 872 | 10 | 9 | 90.0000 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| cchapple-custom | INDEL | * | map_l150_m2_e0 | het | 94.0611 | 95.9161 | 92.2764 | 90.5184 | 869 | 37 | 908 | 76 | 12 | 15.7895 | |
| ckim-dragen | SNP | * | * | hetalt | 99.3162 | 99.7704 | 98.8662 | 49.3103 | 869 | 2 | 872 | 10 | 9 | 90.0000 | |
| hfeng-pmm3 | SNP | * | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 46.7890 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | * | hetalt | 99.8277 | 99.7704 | 99.8851 | 46.7890 | 869 | 2 | 869 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | * | hetalt | 99.7131 | 99.7704 | 99.6560 | 48.7962 | 869 | 2 | 869 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | * | hetalt | 99.7131 | 99.7704 | 99.6560 | 48.7962 | 869 | 2 | 869 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | * | hetalt | 99.8851 | 99.7704 | 100.0000 | 49.0323 | 869 | 2 | 869 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | * | hetalt | 99.8851 | 99.7704 | 100.0000 | 49.0323 | 869 | 2 | 869 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.8593 | 86.7265 | 97.6378 | 63.9497 | 869 | 133 | 868 | 21 | 15 | 71.4286 | |
| ltrigg-rtg1 | SNP | * | * | hetalt | 99.2007 | 99.6556 | 98.7500 | 40.5405 | 868 | 3 | 869 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | SNP | tv | * | hetalt | 99.2007 | 99.6556 | 98.7500 | 40.5405 | 868 | 3 | 869 | 11 | 11 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5530 | 86.6267 | 94.8521 | 57.6727 | 868 | 134 | 866 | 47 | 35 | 74.4681 | |
| astatham-gatk | INDEL | * | map_l150_m2_e1 | het | 95.1831 | 93.9394 | 96.4602 | 91.7945 | 868 | 56 | 872 | 32 | 4 | 12.5000 | |
| bgallagher-sentieon | INDEL | * | map_l125_m0_e0 | * | 97.5866 | 98.4127 | 96.7742 | 90.0652 | 868 | 14 | 870 | 29 | 6 | 20.6897 | |
| cchapple-custom | SNP | * | * | hetalt | 0.0000 | 99.6556 | 0.0000 | 0.0000 | 868 | 3 | 0 | 0 | 0 | ||
| cchapple-custom | SNP | tv | * | hetalt | 0.0000 | 99.6556 | 0.0000 | 0.0000 | 868 | 3 | 0 | 0 | 0 | ||
| ckim-isaac | INDEL | * | map_l150_m2_e1 | * | 74.8271 | 60.3197 | 98.5227 | 91.3700 | 868 | 571 | 867 | 13 | 5 | 38.4615 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.8557 | 99.0868 | 90.9713 | 82.4616 | 868 | 8 | 665 | 66 | 62 | 93.9394 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9234 | 99.0868 | 91.0959 | 82.4814 | 868 | 8 | 665 | 65 | 61 | 93.8462 | |
| dgrover-gatk | SNP | * | * | hetalt | 99.8275 | 99.6556 | 100.0000 | 41.6667 | 868 | 3 | 868 | 0 | 0 | ||
| dgrover-gatk | SNP | tv | * | hetalt | 99.8275 | 99.6556 | 100.0000 | 41.6667 | 868 | 3 | 868 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.0522 | 92.1444 | 96.0407 | 70.6215 | 868 | 74 | 849 | 35 | 23 | 65.7143 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.0745 | 98.9726 | 91.4718 | 82.4269 | 867 | 9 | 665 | 62 | 60 | 96.7742 | |
| ltrigg-rtg2 | SNP | * | * | hetalt | 99.2565 | 99.5408 | 98.9738 | 40.5020 | 867 | 4 | 868 | 9 | 9 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | * | hetalt | 99.2565 | 99.5408 | 98.9738 | 40.5020 | 867 | 4 | 868 | 9 | 9 | 100.0000 | |
| gduggal-bwavard | INDEL | * | segdup | homalt | 94.7011 | 90.3125 | 99.5381 | 91.1777 | 867 | 93 | 862 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_siren | homalt | 85.0834 | 74.2295 | 99.6552 | 84.5085 | 867 | 301 | 867 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | INDEL | * | map_l125_m0_e0 | * | 97.4196 | 98.2993 | 96.5556 | 89.6718 | 867 | 15 | 869 | 31 | 6 | 19.3548 | |
| hfeng-pmm3 | INDEL | * | map_l125_m0_e0 | * | 98.0793 | 98.2993 | 97.8604 | 87.9462 | 867 | 15 | 869 | 19 | 5 | 26.3158 | |
| gduggal-snapfb | SNP | ti | map_l250_m0_e0 | het | 92.8266 | 92.8266 | 92.8266 | 90.7653 | 867 | 67 | 867 | 67 | 29 | 43.2836 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 25.1673 | 16.3154 | 55.0168 | 69.5072 | 867 | 4447 | 817 | 668 | 604 | 90.4192 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4810 | 98.9726 | 90.3794 | 82.0961 | 867 | 9 | 667 | 71 | 69 | 97.1831 | |
| bgallagher-sentieon | SNP | * | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.6615 | 98.9726 | 90.7104 | 82.2631 | 867 | 9 | 664 | 68 | 63 | 92.6471 | |
| astatham-gatk | SNP | * | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| astatham-gatk | SNP | tv | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | * | hetalt | 99.7125 | 99.5408 | 99.8848 | 38.3960 | 867 | 4 | 867 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | * | hetalt | 99.7125 | 99.5408 | 99.8848 | 38.3960 | 867 | 4 | 867 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | * | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | tv | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.2944 | 90.1145 | 92.5056 | 71.8602 | 866 | 95 | 827 | 67 | 61 | 91.0448 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.6204 | 89.4628 | 82.0945 | 59.1015 | 866 | 102 | 2728 | 595 | 253 | 42.5210 | |
| jpowers-varprowl | INDEL | * | segdup | homalt | 93.9252 | 90.2083 | 97.9615 | 91.6422 | 866 | 94 | 865 | 18 | 17 | 94.4444 | |