PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57951-58000 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | tv | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l250_m2_e0 | homalt | 99.1736 | 100.0000 | 98.3607 | 94.7952 | 60 | 0 | 60 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l250_m2_e1 | homalt | 99.1736 | 100.0000 | 98.3607 | 94.9670 | 60 | 0 | 60 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m1_e0 | homalt | 75.7686 | 61.6162 | 98.3607 | 87.4486 | 122 | 76 | 180 | 3 | 2 | 66.6667 | |
| qzeng-custom | SNP | * | map_siren | hetalt | 86.0912 | 76.5432 | 98.3607 | 83.9474 | 62 | 19 | 60 | 1 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | * | 87.6931 | 79.1127 | 98.3611 | 75.8509 | 57280 | 15123 | 56597 | 943 | 784 | 83.1389 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.4031 | 98.4443 | 98.3621 | 86.6144 | 1139 | 18 | 1141 | 19 | 8 | 42.1053 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.0609 | 90.1200 | 98.3621 | 57.5242 | 5482 | 601 | 5525 | 92 | 66 | 71.7391 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8361 | 99.3147 | 98.3621 | 62.3698 | 15652 | 108 | 15494 | 258 | 231 | 89.5349 | |
| gduggal-bwafb | INDEL | * | map_siren | * | 96.8227 | 95.3306 | 98.3622 | 80.8381 | 7064 | 346 | 7147 | 119 | 50 | 42.0168 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | * | 90.6795 | 84.1100 | 98.3622 | 53.8256 | 1101 | 208 | 1021 | 17 | 16 | 94.1176 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 64.4666 | 47.9448 | 98.3624 | 43.7187 | 3266 | 3546 | 2763 | 46 | 36 | 78.2609 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m1_e0 | het | 98.6982 | 99.0358 | 98.3629 | 83.8617 | 719 | 7 | 721 | 12 | 2 | 16.6667 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1771 | 97.9914 | 98.3635 | 52.4340 | 35857 | 735 | 35764 | 595 | 553 | 92.9412 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6446 | 98.9272 | 98.3637 | 73.5579 | 30153 | 327 | 29696 | 494 | 401 | 81.1741 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6446 | 98.9272 | 98.3637 | 73.5579 | 30153 | 327 | 29696 | 494 | 401 | 81.1741 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 97.1296 | 95.9257 | 98.3641 | 85.3950 | 1860 | 79 | 1864 | 31 | 6 | 19.3548 | |
| eyeh-varpipe | SNP | * | map_l250_m2_e1 | * | 98.9222 | 99.4867 | 98.3642 | 90.6150 | 7946 | 41 | 7757 | 129 | 12 | 9.3023 | |
| ckim-dragen | INDEL | D6_15 | HG002complexvar | * | 97.9831 | 97.6047 | 98.3644 | 58.6538 | 5175 | 127 | 5172 | 86 | 83 | 96.5116 | |
| ltrigg-rtg2 | INDEL | C1_5 | HG002complexvar | het | 91.6047 | 85.7143 | 98.3645 | 86.9869 | 6 | 1 | 421 | 7 | 2 | 28.5714 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9493 | 99.5404 | 98.3651 | 65.9133 | 1083 | 5 | 1083 | 18 | 16 | 88.8889 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.3541 | 96.3636 | 98.3651 | 75.9186 | 371 | 14 | 361 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.1088 | 95.8830 | 98.3664 | 54.5270 | 7080 | 304 | 7045 | 117 | 113 | 96.5812 | |
| jmaeng-gatk | INDEL | D16_PLUS | * | homalt | 99.0018 | 99.6454 | 98.3664 | 70.1757 | 1686 | 6 | 1686 | 28 | 20 | 71.4286 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 83.2219 | 72.1186 | 98.3665 | 35.2346 | 1314 | 508 | 1385 | 23 | 22 | 95.6522 | |
| gduggal-bwaplat | SNP | * | HG002complexvar | het | 97.5069 | 96.6621 | 98.3666 | 21.6545 | 449959 | 15538 | 450835 | 7486 | 872 | 11.6484 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8066 | 99.2505 | 98.3666 | 68.3281 | 3840 | 29 | 3794 | 63 | 61 | 96.8254 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.5586 | 96.7635 | 98.3668 | 86.6207 | 1465 | 49 | 1566 | 26 | 21 | 80.7692 | |
| ckim-gatk | INDEL | D16_PLUS | * | homalt | 99.0314 | 99.7045 | 98.3673 | 70.9863 | 1687 | 5 | 1687 | 28 | 22 | 78.5714 | |
| ckim-vqsr | INDEL | D16_PLUS | * | homalt | 99.0314 | 99.7045 | 98.3673 | 70.9863 | 1687 | 5 | 1687 | 28 | 22 | 78.5714 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.9733 | 99.5868 | 98.3673 | 88.4051 | 241 | 1 | 241 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e0 | * | 97.7706 | 97.1809 | 98.3675 | 76.0737 | 29405 | 853 | 29405 | 488 | 165 | 33.8115 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | * | 98.0701 | 97.7744 | 98.3675 | 58.4379 | 5184 | 118 | 5182 | 86 | 79 | 91.8605 | |
| mlin-fermikit | SNP | ti | map_l125_m1_e0 | het | 61.0167 | 44.2242 | 98.3680 | 59.8543 | 8078 | 10188 | 8077 | 134 | 7 | 5.2239 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.0148 | 88.2142 | 98.3681 | 47.4010 | 5157 | 689 | 11935 | 198 | 162 | 81.8182 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.0148 | 88.2142 | 98.3681 | 47.4010 | 5157 | 689 | 11935 | 198 | 162 | 81.8182 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | HG002complexvar | * | 94.7987 | 91.4790 | 98.3685 | 55.6259 | 1503 | 140 | 1447 | 24 | 19 | 79.1667 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 81.5781 | 69.6835 | 98.3690 | 63.8094 | 15260 | 6639 | 15259 | 253 | 243 | 96.0474 | |
| ltrigg-rtg2 | SNP | tv | segdup | * | 98.9872 | 99.6132 | 98.3690 | 88.4663 | 8499 | 33 | 8504 | 141 | 21 | 14.8936 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 89.1201 | 81.4606 | 98.3693 | 34.9531 | 13608 | 3097 | 14116 | 234 | 204 | 87.1795 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 89.1201 | 81.4606 | 98.3693 | 34.9531 | 13608 | 3097 | 14116 | 234 | 204 | 87.1795 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | hetalt | 95.7653 | 93.2955 | 98.3694 | 67.9599 | 3451 | 248 | 3680 | 61 | 61 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e0 | het | 82.3461 | 70.8115 | 98.3696 | 88.9842 | 541 | 223 | 543 | 9 | 3 | 33.3333 | |
| hfeng-pmm2 | INDEL | D6_15 | segdup | * | 96.5333 | 94.7644 | 98.3696 | 93.4752 | 181 | 10 | 181 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | I1_5 | func_cds | * | 99.1781 | 100.0000 | 98.3696 | 47.7273 | 180 | 0 | 181 | 3 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | tv | func_cds | het | 99.1412 | 99.9247 | 98.3698 | 41.4914 | 2655 | 2 | 2655 | 44 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | * | 97.6141 | 96.8698 | 98.3700 | 57.6968 | 4642 | 150 | 4647 | 77 | 75 | 97.4026 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | * | 97.7814 | 97.1998 | 98.3701 | 84.9452 | 2048 | 59 | 2052 | 34 | 6 | 17.6471 | |