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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71401-71450 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | homalt | 99.7609 | 99.6093 | 99.9129 | 63.7805 | 9178 | 36 | 9178 | 8 | 6 | 75.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7826 | 99.6527 | 99.9129 | 62.6693 | 3443 | 12 | 3443 | 3 | 3 | 100.0000 | |
| dgrover-gatk | SNP | ti | func_cds | * | 99.9347 | 99.9565 | 99.9130 | 23.1014 | 13781 | 6 | 13779 | 12 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7571 | 99.6017 | 99.9130 | 55.8468 | 25258 | 101 | 25261 | 22 | 14 | 63.6364 | |
| hfeng-pmm1 | SNP | ti | func_cds | * | 99.9384 | 99.9637 | 99.9130 | 21.7209 | 13782 | 5 | 13780 | 12 | 0 | 0.0000 | |
| astatham-gatk | SNP | * | map_l100_m2_e1 | homalt | 99.6157 | 99.3200 | 99.9131 | 60.3111 | 27607 | 189 | 27607 | 24 | 19 | 79.1667 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | het | 99.8048 | 99.6966 | 99.9132 | 56.2931 | 20702 | 63 | 20710 | 18 | 11 | 61.1111 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5615 | 99.2123 | 99.9132 | 66.4238 | 11461 | 91 | 11511 | 10 | 8 | 80.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | * | 99.1888 | 98.4747 | 99.9133 | 56.8376 | 32216 | 499 | 32267 | 28 | 18 | 64.2857 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e0 | homalt | 99.7723 | 99.6317 | 99.9134 | 65.2834 | 17311 | 64 | 17311 | 15 | 11 | 73.3333 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | homalt | 99.6765 | 99.4406 | 99.9135 | 60.1441 | 11555 | 65 | 11555 | 10 | 8 | 80.0000 | |
| jli-custom | SNP | * | map_l100_m0_e0 | homalt | 99.6679 | 99.4234 | 99.9135 | 58.5496 | 11553 | 67 | 11553 | 10 | 10 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.3861 | 91.2510 | 99.9136 | 55.5641 | 1116 | 107 | 1157 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | tv | map_l100_m2_e1 | homalt | 99.6821 | 99.4517 | 99.9136 | 62.0828 | 9251 | 51 | 9251 | 8 | 5 | 62.5000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | homalt | 99.7631 | 99.6130 | 99.9137 | 63.7862 | 9266 | 36 | 9266 | 8 | 6 | 75.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3998 | 98.8910 | 99.9138 | 41.4542 | 4637 | 52 | 4634 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4418 | 98.9742 | 99.9138 | 61.4203 | 6947 | 72 | 6953 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5686 | 97.2591 | 99.9139 | 42.5606 | 1100 | 31 | 1161 | 1 | 0 | 0.0000 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | homalt | 68.6373 | 52.2738 | 99.9139 | 81.5935 | 1161 | 1060 | 1161 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.6754 | 93.6402 | 99.9140 | 32.5015 | 1119 | 76 | 1162 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2779 | 98.6498 | 99.9141 | 39.6579 | 2338 | 32 | 2326 | 2 | 2 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2511 | 98.5968 | 99.9141 | 62.3697 | 34922 | 497 | 34912 | 30 | 13 | 43.3333 | |
| raldana-dualsentieon | SNP | * | map_l125_m2_e1 | homalt | 99.7744 | 99.6350 | 99.9142 | 65.3032 | 17468 | 64 | 17468 | 15 | 11 | 73.3333 | |
| jmaeng-gatk | SNP | tv | map_l125_m0_e0 | homalt | 68.7924 | 52.4538 | 99.9142 | 80.5764 | 1165 | 1056 | 1165 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | map_l150_m2_e0 | homalt | 99.7002 | 99.4871 | 99.9142 | 70.0015 | 11639 | 60 | 11639 | 10 | 10 | 100.0000 | |
| jlack-gatk | SNP | ti | HG002complexvar | het | 99.8980 | 99.8818 | 99.9142 | 17.5660 | 314394 | 372 | 314340 | 270 | 88 | 32.5926 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | homalt | 99.7775 | 99.6410 | 99.9143 | 73.3265 | 11657 | 42 | 11657 | 10 | 10 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7789 | 99.6438 | 99.9143 | 60.0480 | 6994 | 25 | 6992 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.9002 | 99.8860 | 99.9144 | 60.6431 | 7011 | 8 | 7007 | 6 | 3 | 50.0000 | |
| egarrison-hhga | SNP | tv | map_l125_m1_e0 | homalt | 99.7864 | 99.6587 | 99.9145 | 66.8895 | 5840 | 20 | 5840 | 5 | 5 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.8719 | 99.8294 | 99.9145 | 39.6596 | 4681 | 8 | 4676 | 4 | 1 | 25.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1639 | 94.5607 | 99.9146 | 34.3978 | 1130 | 65 | 1170 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9869 | 94.2259 | 99.9146 | 34.2135 | 1126 | 69 | 1170 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m1_e0 | homalt | 99.7886 | 99.6630 | 99.9146 | 57.7258 | 26912 | 91 | 26912 | 23 | 18 | 78.2609 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1505 | 98.3978 | 99.9147 | 54.8907 | 17565 | 286 | 17565 | 15 | 4 | 26.6667 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8508 | 99.7870 | 99.9147 | 58.6642 | 16394 | 35 | 16393 | 14 | 4 | 28.5714 | |
| ckim-isaac | SNP | tv | segdup | * | 97.9382 | 96.0384 | 99.9147 | 88.7225 | 8194 | 338 | 8196 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4050 | 96.9403 | 99.9148 | 68.3120 | 4689 | 148 | 4689 | 4 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3601 | 96.8531 | 99.9148 | 65.6503 | 9387 | 305 | 9387 | 8 | 5 | 62.5000 | |
| hfeng-pmm2 | SNP | * | map_siren | homalt | 99.9075 | 99.9003 | 99.9148 | 53.4382 | 55101 | 55 | 55092 | 47 | 29 | 61.7021 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1641 | 94.5607 | 99.9149 | 34.2105 | 1130 | 65 | 1174 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | SNP | tv | map_l100_m1_e0 | homalt | 95.2001 | 90.9101 | 99.9149 | 63.7649 | 8221 | 822 | 8222 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | homalt | 99.8679 | 99.8207 | 99.9150 | 58.2795 | 10579 | 19 | 10583 | 9 | 8 | 88.8889 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | homalt | 99.8773 | 99.8396 | 99.9150 | 58.5881 | 10581 | 17 | 10585 | 9 | 7 | 77.7778 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | homalt | 99.8962 | 99.8773 | 99.9151 | 58.2388 | 10585 | 13 | 10590 | 9 | 8 | 88.8889 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4714 | 99.0316 | 99.9151 | 48.2190 | 11760 | 115 | 11765 | 10 | 7 | 70.0000 | |
| jli-custom | SNP | * | map_l150_m2_e1 | homalt | 99.7034 | 99.4927 | 99.9151 | 70.0155 | 11767 | 60 | 11767 | 10 | 10 | 100.0000 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.7799 | 99.6449 | 99.9152 | 73.3597 | 11785 | 42 | 11785 | 10 | 10 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l150_m1_e0 | homalt | 65.1458 | 48.3281 | 99.9153 | 66.1412 | 3541 | 3786 | 3541 | 3 | 3 | 100.0000 | |