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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25801-25850 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0545 | 97.4227 | 98.6945 | 74.6358 | 378 | 10 | 378 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4375 | 97.4227 | 99.4737 | 74.0968 | 378 | 10 | 378 | 2 | 1 | 50.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.5874 | 94.5714 | 98.6911 | 35.4730 | 331 | 19 | 377 | 5 | 5 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.2836 | 99.7361 | 84.1518 | 60.0000 | 378 | 1 | 377 | 71 | 71 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9501 | 98.4334 | 99.4723 | 83.2597 | 377 | 6 | 377 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m0_e0 | * | 97.0408 | 97.9239 | 96.1735 | 91.2206 | 283 | 6 | 377 | 15 | 8 | 53.3333 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.6684 | 97.6684 | 97.6684 | 90.9048 | 377 | 9 | 377 | 9 | 4 | 44.4444 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.1908 | 91.4842 | 99.2105 | 70.2428 | 376 | 35 | 377 | 3 | 3 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | segdup | homalt | 91.2889 | 88.3008 | 94.4862 | 94.9101 | 317 | 42 | 377 | 22 | 10 | 45.4545 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2903 | 98.1771 | 96.4194 | 86.0507 | 377 | 7 | 377 | 14 | 2 | 14.2857 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0494 | 98.1771 | 97.9221 | 86.1908 | 377 | 7 | 377 | 8 | 2 | 25.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2903 | 98.1771 | 96.4194 | 85.9201 | 377 | 7 | 377 | 14 | 2 | 14.2857 | |
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | homalt | 26.5493 | 15.3065 | 100.0000 | 97.5301 | 377 | 2086 | 377 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.6772 | 97.3890 | 100.0000 | 83.6726 | 373 | 10 | 377 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.0000 | 99.2084 | 89.3112 | 60.6909 | 376 | 3 | 376 | 45 | 44 | 97.7778 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.9388 | 63.0225 | 57.1429 | 46.3295 | 196 | 115 | 376 | 282 | 235 | 83.3333 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.5857 | 94.5714 | 98.6877 | 35.6419 | 331 | 19 | 376 | 5 | 5 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.3833 | 99.2084 | 86.4368 | 60.3102 | 376 | 3 | 376 | 59 | 59 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.8591 | 94.8571 | 98.9474 | 33.0986 | 332 | 18 | 376 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.9657 | 75.7143 | 94.2356 | 75.6856 | 371 | 119 | 376 | 23 | 20 | 86.9565 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.4829 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.0812 | 98.5037 | 97.6623 | 82.7122 | 395 | 6 | 376 | 9 | 3 | 33.3333 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.5761 | 98.2544 | 96.9072 | 81.0824 | 394 | 7 | 376 | 12 | 5 | 41.6667 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.3538 | 99.2084 | 89.9522 | 60.9346 | 376 | 3 | 376 | 42 | 42 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.1419 | 76.6600 | 90.8213 | 72.4184 | 381 | 116 | 376 | 38 | 25 | 65.7895 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.0580 | 91.2409 | 99.2084 | 70.5288 | 375 | 36 | 376 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m0_e0 | * | 81.3853 | 69.2449 | 98.6877 | 86.2752 | 376 | 167 | 376 | 5 | 2 | 40.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 90.2020 | 86.7117 | 93.9850 | 69.4253 | 385 | 59 | 375 | 24 | 5 | 20.8333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7836 | 97.1503 | 98.4252 | 91.2111 | 375 | 11 | 375 | 6 | 4 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9112 | 96.6495 | 99.2063 | 75.8157 | 375 | 13 | 375 | 3 | 2 | 66.6667 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6296 | 93.9474 | 99.4695 | 63.7151 | 357 | 23 | 375 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.1029 | 98.9446 | 89.7129 | 61.3321 | 375 | 4 | 375 | 43 | 43 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.7854 | 98.9446 | 92.8218 | 59.3152 | 375 | 4 | 375 | 29 | 29 | 100.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 98.0392 | 97.1503 | 98.9446 | 91.0613 | 375 | 11 | 375 | 4 | 2 | 50.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 69.8324 | 53.8020 | 99.4695 | 52.3990 | 375 | 322 | 375 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0392 | 97.6562 | 98.4252 | 84.5998 | 375 | 9 | 375 | 6 | 2 | 33.3333 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7500 | 98.9446 | 89.0736 | 60.1703 | 375 | 4 | 375 | 46 | 46 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7333 | 100.0000 | 99.4681 | 59.3514 | 374 | 0 | 374 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6501 | 96.3918 | 98.9418 | 73.2295 | 374 | 14 | 374 | 4 | 3 | 75.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8665 | 100.0000 | 99.7333 | 59.5032 | 374 | 0 | 374 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.8691 | 93.6803 | 98.1627 | 71.5034 | 252 | 17 | 374 | 7 | 6 | 85.7143 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7333 | 100.0000 | 99.4681 | 59.4391 | 374 | 0 | 374 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8665 | 100.0000 | 99.7333 | 59.5032 | 374 | 0 | 374 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8665 | 100.0000 | 99.7333 | 59.5032 | 374 | 0 | 374 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.9417 | 80.9524 | 98.6807 | 38.3740 | 374 | 88 | 374 | 5 | 2 | 40.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.8665 | 100.0000 | 99.7333 | 59.4595 | 374 | 0 | 374 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 55.5615 | 38.9075 | 97.1429 | 49.6732 | 349 | 548 | 374 | 11 | 11 | 100.0000 | |