PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84201-84250 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3604 | 98.8187 | 99.9081 | 42.3617 | 2175 | 26 | 2175 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.3333 | 90.0990 | 96.8085 | 93.6314 | 91 | 10 | 91 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 93.8462 | 92.4242 | 95.3125 | 93.8402 | 61 | 5 | 61 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3658 | 98.8087 | 99.9291 | 26.8533 | 1410 | 17 | 1410 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m1_e0 | homalt | 61.0965 | 43.9922 | 99.9620 | 75.5921 | 7901 | 10059 | 7901 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e0 | homalt | 61.7649 | 44.6884 | 99.9633 | 77.1942 | 8182 | 10127 | 8182 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | homalt | 61.9730 | 44.9065 | 99.9639 | 77.0833 | 8305 | 10189 | 8305 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | homalt | 46.9945 | 30.7198 | 99.9411 | 85.1863 | 3393 | 7652 | 3393 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | homalt | 48.2602 | 31.8102 | 99.9447 | 86.1579 | 3613 | 7745 | 3613 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | homalt | 48.4929 | 32.0126 | 99.9455 | 86.0864 | 3668 | 7790 | 3668 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m1_e0 | homalt | 39.6323 | 24.7168 | 99.9448 | 90.0193 | 1811 | 5516 | 1811 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e0 | homalt | 41.2133 | 25.9585 | 99.9494 | 90.5585 | 1977 | 5639 | 1977 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | homalt | 41.3935 | 26.1017 | 99.9502 | 90.5160 | 2008 | 5685 | 2008 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_siren | hetalt | 69.6629 | 54.3860 | 96.8750 | 86.4407 | 31 | 26 | 31 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_siren | homalt | 77.6182 | 63.4297 | 99.9834 | 60.5065 | 24050 | 13866 | 24044 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | ti | segdup | homalt | 98.5954 | 97.2685 | 99.9589 | 88.0169 | 7300 | 205 | 7300 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 44.8052 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | tech_badpromoters | homalt | 98.7952 | 100.0000 | 97.6190 | 41.6667 | 41 | 0 | 41 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | * | hetalt | 97.4148 | 95.1780 | 99.7593 | 54.6645 | 829 | 42 | 829 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5025 | 99.0393 | 99.9700 | 61.7944 | 10000 | 97 | 10000 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1639 | 98.4142 | 99.9251 | 72.5328 | 5337 | 86 | 5337 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4059 | 99.0138 | 99.8012 | 86.2267 | 502 | 5 | 502 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.3666 | 99.2095 | 99.5242 | 88.1418 | 1255 | 10 | 1255 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3069 | 99.2443 | 99.3695 | 89.2982 | 788 | 6 | 788 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4652 | 99.1471 | 99.7854 | 85.4602 | 465 | 4 | 465 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6989 | 99.4660 | 99.9329 | 79.6894 | 1490 | 8 | 1490 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1639 | 98.4142 | 99.9251 | 72.5328 | 5337 | 86 | 5337 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7164 | 99.4907 | 99.9431 | 60.9458 | 1758 | 9 | 1758 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3400 | 98.7394 | 99.9479 | 59.7020 | 3838 | 49 | 3838 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_siren | hetalt | 70.8661 | 55.5556 | 97.8261 | 87.6676 | 45 | 36 | 45 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | segdup | homalt | 98.5612 | 97.3132 | 99.8416 | 90.0895 | 3151 | 87 | 3151 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | tv | tech_badpromoters | * | 97.9021 | 97.2222 | 98.5915 | 53.2895 | 70 | 2 | 70 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 51.8519 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 38.4824 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.0429 | 96.5665 | 99.5652 | 76.4344 | 225 | 8 | 229 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 98.0901 | 96.9697 | 99.2366 | 80.0912 | 128 | 4 | 130 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | func_cds | * | 86.9565 | 83.3333 | 90.9091 | 71.0526 | 10 | 2 | 10 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | func_cds | het | 87.5000 | 87.5000 | 87.5000 | 72.4138 | 7 | 1 | 7 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 38.1558 | 24.5902 | 85.1064 | 80.8424 | 120 | 368 | 120 | 21 | 21 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 28.5714 | 25.0000 | 33.3333 | 98.2857 | 1 | 3 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 50.0000 | 100.0000 | 33.3333 | 97.9452 | 1 | 0 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 28.5714 | 25.0000 | 33.3333 | 98.2558 | 1 | 3 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 50.0000 | 100.0000 | 33.3333 | 97.9021 | 1 | 0 | 1 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 34.7605 | 22.3938 | 77.6316 | 77.3134 | 58 | 201 | 59 | 17 | 17 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 44.9438 | 31.4961 | 78.4314 | 66.6667 | 40 | 87 | 40 | 11 | 11 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 81.4815 | 73.3333 | 91.6667 | 98.2609 | 11 | 4 | 11 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 20.6573 | 11.7647 | 84.6154 | 90.7801 | 12 | 90 | 11 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 58.4615 | 42.2222 | 95.0000 | 72.9730 | 19 | 26 | 19 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 21.4286 | 19.5652 | 23.6842 | 60.8247 | 9 | 37 | 9 | 29 | 29 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 28.5714 | 75.0000 | 17.6471 | 59.5238 | 6 | 2 | 6 | 28 | 28 | 100.0000 | |