PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12251-12300 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | tv | map_l125_m2_e1 | homalt | 76.3359 | 61.7386 | 99.9733 | 76.6438 | 3750 | 2324 | 3750 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 79.0601 | 66.9823 | 96.4515 | 82.5174 | 3749 | 1848 | 3751 | 138 | 63 | 45.6522 | |
| ckim-gatk | SNP | tv | map_l125_m2_e1 | homalt | 76.2777 | 61.6727 | 99.9466 | 77.3753 | 3746 | 2328 | 3746 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.1239 | 92.6980 | 95.5943 | 77.1597 | 3745 | 295 | 3450 | 159 | 125 | 78.6164 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0821 | 99.3893 | 94.8796 | 55.1755 | 3743 | 23 | 3743 | 202 | 199 | 98.5149 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0821 | 99.3893 | 94.8796 | 55.1755 | 3743 | 23 | 3743 | 202 | 199 | 98.5149 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1261 | 99.3893 | 98.8642 | 54.0422 | 3743 | 23 | 3743 | 43 | 42 | 97.6744 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1261 | 99.3893 | 98.8642 | 54.0422 | 3743 | 23 | 3743 | 43 | 42 | 97.6744 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0206 | 99.3362 | 98.7071 | 54.3318 | 3741 | 25 | 3741 | 49 | 45 | 91.8367 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1864 | 99.4416 | 98.9325 | 66.4187 | 3740 | 21 | 3707 | 40 | 40 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1864 | 99.4416 | 98.9325 | 66.4187 | 3740 | 21 | 3707 | 40 | 40 | 100.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 73.8753 | 73.0416 | 74.7283 | 69.3443 | 3739 | 1380 | 3850 | 1302 | 863 | 66.2826 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0855 | 99.3885 | 98.7844 | 71.5296 | 3738 | 23 | 3738 | 46 | 44 | 95.6522 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2174 | 99.3885 | 99.0469 | 69.9044 | 3738 | 23 | 3741 | 36 | 34 | 94.4444 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2174 | 99.3885 | 99.0469 | 69.9044 | 3738 | 23 | 3741 | 36 | 34 | 94.4444 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | * | 74.8997 | 81.6117 | 69.2079 | 91.2986 | 3737 | 842 | 3722 | 1656 | 368 | 22.2222 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0984 | 99.3619 | 98.8363 | 71.4448 | 3737 | 24 | 3737 | 44 | 44 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0984 | 99.3619 | 98.8363 | 71.4448 | 3737 | 24 | 3737 | 44 | 44 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0590 | 99.3619 | 98.7579 | 70.3448 | 3737 | 24 | 3737 | 47 | 47 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0590 | 99.3619 | 98.7579 | 70.3448 | 3737 | 24 | 3737 | 47 | 47 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0587 | 99.3353 | 98.7837 | 71.2941 | 3736 | 25 | 3736 | 46 | 45 | 97.8261 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0587 | 99.3353 | 98.7837 | 71.2941 | 3736 | 25 | 3736 | 46 | 45 | 97.8261 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 76.5888 | 63.9069 | 95.5499 | 83.7077 | 3736 | 2110 | 3736 | 174 | 72 | 41.3793 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 76.5888 | 63.9069 | 95.5499 | 83.7077 | 3736 | 2110 | 3736 | 174 | 72 | 41.3793 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0456 | 99.3353 | 98.7576 | 71.4856 | 3736 | 25 | 3736 | 47 | 45 | 95.7447 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0456 | 99.3353 | 98.7576 | 71.4856 | 3736 | 25 | 3736 | 47 | 45 | 95.7447 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.8170 | 96.5624 | 74.0438 | 56.3581 | 3736 | 133 | 4259 | 1493 | 1471 | 98.5265 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2559 | 99.3087 | 99.2032 | 69.9329 | 3735 | 26 | 3735 | 30 | 29 | 96.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2559 | 99.3087 | 99.2032 | 69.9329 | 3735 | 26 | 3735 | 30 | 29 | 96.6667 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.9430 | 98.1340 | 99.7654 | 46.0565 | 3734 | 71 | 3828 | 9 | 9 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.3772 | 92.4257 | 96.4128 | 70.4962 | 3734 | 306 | 3709 | 138 | 44 | 31.8841 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.5038 | 95.3512 | 99.7559 | 75.0693 | 3733 | 182 | 3678 | 9 | 6 | 66.6667 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0580 | 99.2555 | 98.8612 | 71.4717 | 3733 | 28 | 3733 | 43 | 43 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0580 | 99.2555 | 98.8612 | 71.4717 | 3733 | 28 | 3733 | 43 | 43 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l150_m2_e0 | homalt | 65.7563 | 49.0021 | 99.9197 | 70.0457 | 3732 | 3884 | 3732 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1260 | 92.3762 | 93.8881 | 76.4157 | 3732 | 308 | 3441 | 224 | 202 | 90.1786 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.5863 | 99.2023 | 97.9779 | 71.0352 | 3731 | 30 | 3731 | 77 | 75 | 97.4026 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.8555 | 92.3515 | 95.4093 | 77.3915 | 3731 | 309 | 3450 | 166 | 128 | 77.1084 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |