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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32001-32050 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 91.5094 | 95.0980 | 88.1818 | 60.7143 | 97 | 5 | 97 | 13 | 8 | 61.5385 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.3508 | 91.6667 | 95.0980 | 76.7654 | 99 | 9 | 97 | 5 | 4 | 80.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 87.8883 | 79.0323 | 98.9796 | 99.9286 | 98 | 26 | 97 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.7198 | 89.8148 | 97.9798 | 82.7526 | 97 | 11 | 97 | 2 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.9955 | 78.2258 | 97.9798 | 90.3131 | 97 | 27 | 97 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m0_e0 | het | 95.0980 | 91.5094 | 98.9796 | 92.1222 | 97 | 9 | 97 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | homalt | 85.4626 | 74.6154 | 100.0000 | 85.9216 | 97 | 33 | 97 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m0_e0 | het | 67.1280 | 50.5208 | 100.0000 | 96.7944 | 97 | 95 | 97 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 64.6777 | 48.7562 | 96.0396 | 90.9091 | 98 | 103 | 97 | 4 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | map_l125_m1_e0 | hetalt | 99.4872 | 100.0000 | 98.9796 | 72.3944 | 30 | 0 | 97 | 1 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l250_m1_e0 | * | 87.4195 | 92.4528 | 82.9060 | 96.3265 | 98 | 8 | 97 | 20 | 5 | 25.0000 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.7853 | 89.1089 | 98.9796 | 92.5362 | 90 | 11 | 97 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | map_siren | het | 88.5508 | 92.3077 | 85.0877 | 91.8397 | 72 | 6 | 97 | 17 | 9 | 52.9412 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m0_e0 | * | 95.0980 | 94.1748 | 96.0396 | 90.6481 | 97 | 6 | 97 | 4 | 0 | 0.0000 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.5164 | 92.1569 | 97.0000 | 93.1741 | 94 | 8 | 97 | 3 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 70.5909 | 54.8571 | 98.9796 | 54.4186 | 96 | 79 | 97 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.6652 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| ckim-vqsr | SNP | ti | map_l250_m0_e0 | homalt | 36.3977 | 22.2477 | 100.0000 | 97.9282 | 97 | 339 | 97 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | map_l100_m0_e0 | * | 92.6956 | 91.2621 | 94.1748 | 88.1609 | 94 | 9 | 97 | 6 | 2 | 33.3333 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 84.9868 | 78.6885 | 92.3810 | 59.6154 | 96 | 26 | 97 | 8 | 3 | 37.5000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 62.8595 | 61.5385 | 64.2384 | 88.8643 | 88 | 55 | 97 | 54 | 16 | 29.6296 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 95.6522 | 91.6667 | 100.0000 | 82.3636 | 99 | 9 | 97 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.4071 | 93.1373 | 78.8618 | 92.1305 | 95 | 7 | 97 | 26 | 3 | 11.5385 | |
| anovak-vg | INDEL | D6_15 | map_l125_m2_e1 | * | 76.3524 | 73.4375 | 79.5082 | 88.8584 | 94 | 34 | 97 | 25 | 15 | 60.0000 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 60.5316 | 65.3226 | 56.3953 | 87.8359 | 81 | 43 | 97 | 75 | 22 | 29.3333 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.5019 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.5296 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.0396 | 95.0980 | 97.0000 | 64.6643 | 97 | 5 | 97 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.8784 | 82.4324 | 70.2899 | 72.7811 | 122 | 26 | 97 | 41 | 41 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.5174 | 95.0980 | 97.9798 | 60.8696 | 97 | 5 | 97 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.9955 | 78.2258 | 97.9798 | 90.7216 | 97 | 27 | 97 | 2 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 89.8148 | 94.1748 | 85.8407 | 90.7453 | 97 | 6 | 97 | 16 | 2 | 12.5000 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 86.4865 | 77.4194 | 97.9592 | 90.1210 | 96 | 28 | 96 | 2 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 75.1699 | 81.7568 | 69.5652 | 72.8346 | 121 | 27 | 96 | 42 | 42 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 64.7519 | 58.7097 | 72.1805 | 82.7048 | 91 | 64 | 96 | 37 | 36 | 97.2973 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | het | 60.1947 | 80.0234 | 48.2412 | 75.0000 | 685 | 171 | 96 | 103 | 100 | 97.0874 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 48.6766 | 60.9756 | 40.5063 | 39.2308 | 25 | 16 | 96 | 141 | 140 | 99.2908 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 86.4865 | 99.7553 | 0 | 0 | 96 | 15 | 15 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | map_siren | homalt | 86.4629 | 76.1538 | 100.0000 | 75.5102 | 99 | 31 | 96 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | segdup | hetalt | 85.0838 | 74.6154 | 98.9691 | 96.9725 | 97 | 33 | 96 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m0_e0 | het | 64.2140 | 47.5248 | 98.9691 | 97.6861 | 96 | 106 | 96 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.6123 | 93.8272 | 91.4286 | 75.5814 | 76 | 5 | 96 | 9 | 3 | 33.3333 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 80.8643 | 90.1961 | 73.2824 | 95.0076 | 92 | 10 | 96 | 35 | 8 | 22.8571 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 66.6667 | 100.0000 | 50.0000 | 60.4938 | 22 | 0 | 96 | 96 | 85 | 88.5417 | |
| qzeng-custom | INDEL | * | map_l250_m2_e0 | homalt | 73.1839 | 59.1304 | 96.0000 | 96.3262 | 68 | 47 | 96 | 4 | 1 | 25.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.4673 | 87.7358 | 100.0000 | 72.8814 | 93 | 13 | 96 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.2308 | 89.0909 | 100.0000 | 89.1403 | 98 | 12 | 96 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.0000 | 97.9592 | 95.9184 | 0 | 0 | 96 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.0000 | 97.9592 | 95.9184 | 0 | 0 | 96 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m1_e0 | het | 80.9816 | 79.2793 | 82.7586 | 97.8940 | 88 | 23 | 96 | 20 | 5 | 25.0000 | |