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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14001-14050 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | * | * | het | 99.8554 | 99.7670 | 99.9441 | 18.2036 | 1869221 | 4366 | 1869241 | 1046 | 128 | 12.2371 | |
| eyeh-varpipe | SNP | tv | HG002complexvar | homalt | 99.9220 | 99.9001 | 99.9440 | 20.4163 | 95016 | 95 | 89180 | 50 | 38 | 76.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 93.5326 | 87.8942 | 99.9440 | 58.7524 | 5351 | 737 | 5353 | 3 | 1 | 33.3333 | |
| ckim-isaac | SNP | * | HG002complexvar | het | 96.2337 | 92.7890 | 99.9440 | 16.5252 | 431933 | 33567 | 432230 | 242 | 35 | 14.4628 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| ckim-isaac | SNP | tv | map_l150_m2_e1 | homalt | 60.1387 | 43.0092 | 99.9438 | 72.5081 | 1778 | 2356 | 1778 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | tv | * | het | 99.8548 | 99.7659 | 99.9438 | 20.8578 | 590311 | 1385 | 590332 | 332 | 44 | 13.2530 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4520 | 98.9651 | 99.9438 | 27.8836 | 7172 | 75 | 7111 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | homalt | 75.5546 | 60.7338 | 99.9438 | 75.6613 | 3559 | 2301 | 3559 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9195 | 97.9163 | 99.9436 | 71.6321 | 5310 | 113 | 5314 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9195 | 97.9163 | 99.9436 | 71.6321 | 5310 | 113 | 5314 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5369 | 99.1334 | 99.9436 | 40.3106 | 10639 | 93 | 10639 | 6 | 1 | 16.6667 | |
| jli-custom | SNP | ti | * | * | 99.9536 | 99.9637 | 99.9435 | 16.8976 | 2084755 | 756 | 2084716 | 1179 | 130 | 11.0263 | |
| ckim-isaac | SNP | * | map_l125_m2_e0 | homalt | 67.3485 | 50.7856 | 99.9434 | 65.6165 | 8824 | 8551 | 8824 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7732 | 99.6038 | 99.9432 | 61.2967 | 1760 | 7 | 1760 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7732 | 99.6038 | 99.9432 | 60.7007 | 1760 | 7 | 1760 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7448 | 99.5473 | 99.9432 | 61.1393 | 1759 | 8 | 1759 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7448 | 99.5473 | 99.9432 | 60.9323 | 1759 | 8 | 1759 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8016 | 99.6604 | 99.9432 | 62.6695 | 1761 | 6 | 1761 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7164 | 99.4907 | 99.9431 | 61.2384 | 1758 | 9 | 1758 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6310 | 99.3209 | 99.9431 | 59.6415 | 1755 | 12 | 1755 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7164 | 99.4907 | 99.9431 | 60.9458 | 1758 | 9 | 1758 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6595 | 99.3775 | 99.9431 | 60.9816 | 1756 | 11 | 1756 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1355 | 98.3410 | 99.9430 | 61.2925 | 1719 | 29 | 1754 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e1 | homalt | 44.7879 | 28.8607 | 99.9430 | 87.9632 | 1753 | 4321 | 1753 | 1 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9073 | 99.8718 | 99.9429 | 60.7832 | 7010 | 9 | 7006 | 4 | 3 | 75.0000 | |
| ckim-isaac | SNP | tv | map_l150_m2_e0 | homalt | 59.9931 | 42.8606 | 99.9429 | 72.5764 | 1750 | 2333 | 1750 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4598 | 98.9813 | 99.9429 | 61.0494 | 1749 | 18 | 1751 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8574 | 99.7720 | 99.9429 | 62.6048 | 7003 | 16 | 6999 | 4 | 1 | 25.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.0190 | 98.1121 | 99.9429 | 58.3888 | 1715 | 33 | 1750 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | map_l125_m2_e1 | homalt | 99.7600 | 99.5779 | 99.9428 | 65.9933 | 17458 | 74 | 17465 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | SNP | ti | HG002complexvar | homalt | 98.4467 | 96.9948 | 99.9428 | 17.4866 | 187650 | 5814 | 183526 | 105 | 78 | 74.2857 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4025 | 98.8681 | 99.9427 | 55.9677 | 1747 | 20 | 1744 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7420 | 99.5423 | 99.9426 | 61.0950 | 1740 | 8 | 1740 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7161 | 99.4907 | 99.9426 | 43.6105 | 1758 | 9 | 1742 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6558 | 99.3707 | 99.9425 | 60.9877 | 1737 | 11 | 1737 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6558 | 99.3707 | 99.9425 | 60.9526 | 1737 | 11 | 1737 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6558 | 99.3707 | 99.9425 | 65.7132 | 1737 | 11 | 1737 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7133 | 99.4851 | 99.9425 | 62.4676 | 1739 | 9 | 1739 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6558 | 99.3707 | 99.9425 | 60.7763 | 1737 | 11 | 1737 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5116 | 99.0847 | 99.9423 | 61.0562 | 1732 | 16 | 1732 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | map_l125_m2_e0 | homalt | 99.7578 | 99.5741 | 99.9422 | 65.9494 | 17301 | 74 | 17302 | 10 | 9 | 90.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2107 | 98.4898 | 99.9421 | 60.9841 | 6913 | 106 | 6910 | 4 | 2 | 50.0000 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6843 | 99.4279 | 99.9421 | 53.0723 | 1738 | 10 | 1725 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | homalt | 44.5965 | 28.7020 | 99.9421 | 88.0225 | 1727 | 4290 | 1727 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8406 | 99.7395 | 99.9420 | 62.2220 | 3446 | 9 | 3446 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_siren | homalt | 99.8636 | 99.7854 | 99.9419 | 55.8765 | 17203 | 37 | 17203 | 10 | 9 | 90.0000 | |
| ckim-gatk | INDEL | I1_5 | * | hetalt | 95.6301 | 91.6749 | 99.9419 | 60.1212 | 10263 | 932 | 10325 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | ti | map_siren | homalt | 99.8244 | 99.7072 | 99.9418 | 51.3860 | 37805 | 111 | 37806 | 22 | 20 | 90.9091 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8164 | 99.6914 | 99.9417 | 52.6220 | 17124 | 53 | 17138 | 10 | 7 | 70.0000 | |