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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54601-54650 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.0583 | 99.0196 | 97.1154 | 64.3836 | 101 | 1 | 101 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m0_e0 | het | 89.6047 | 94.7368 | 85.0000 | 97.5248 | 18 | 1 | 17 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8372 | 98.8372 | 98.8372 | 63.5593 | 255 | 3 | 255 | 3 | 3 | 100.0000 | |
| 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-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.7372 | 99.6061 | 99.8685 | 48.0892 | 2276 | 9 | 2279 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0329 | 99.2248 | 98.8417 | 84.1880 | 256 | 2 | 256 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.3232 | 99.1554 | 99.4915 | 83.5517 | 587 | 5 | 587 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.3443 | 99.1817 | 99.5074 | 84.1571 | 606 | 5 | 606 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 84.2025 | 615 | 5 | 615 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 80.0633 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5517 | 99.4030 | 99.7009 | 66.4548 | 999 | 6 | 1000 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5944 | 99.5365 | 99.6524 | 64.2502 | 859 | 4 | 860 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 93.8053 | 92.9825 | 94.6429 | 99.4757 | 53 | 4 | 53 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 91.5663 | 90.4762 | 92.6829 | 99.3618 | 38 | 4 | 38 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7650 | 99.8824 | 99.6479 | 51.2307 | 849 | 1 | 849 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5654 | 99.3064 | 99.8258 | 36.8073 | 1718 | 12 | 1719 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m1_e0 | * | 96.5986 | 97.2603 | 95.9459 | 94.3164 | 71 | 2 | 71 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m1_e0 | het | 95.0000 | 97.4359 | 92.6829 | 95.6978 | 38 | 1 | 38 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m2_e0 | * | 96.9697 | 97.5610 | 96.3855 | 94.3422 | 80 | 2 | 80 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m2_e0 | het | 95.7447 | 97.8261 | 93.7500 | 95.5514 | 45 | 1 | 45 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m2_e1 | * | 96.4706 | 96.4706 | 96.4706 | 94.3296 | 82 | 3 | 82 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | map_l150_m2_e1 | het | 95.8333 | 97.8723 | 93.8776 | 95.5616 | 46 | 1 | 46 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | D6_15 | segdup | het | 96.7391 | 96.7391 | 96.7391 | 96.5939 | 89 | 3 | 89 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4079 | 91.7293 | 97.2477 | 87.7940 | 122 | 11 | 106 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| 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-vqsr | INDEL | I16_PLUS | map_l100_m2_e0 | * | 90.5660 | 92.3077 | 88.8889 | 96.4333 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | map_l100_m2_e1 | * | 90.5660 | 92.3077 | 88.8889 | 96.4520 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.1910 | 92.7080 | 99.9459 | 61.2682 | 5505 | 433 | 5543 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.9445 | 98.1905 | 99.7101 | 62.5272 | 1031 | 19 | 1032 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.2840 | 100.0000 | 98.5782 | 81.2278 | 208 | 0 | 208 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7096 | 93.7179 | 99.8985 | 40.2466 | 2924 | 196 | 2953 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.3618 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.0000 | 100.0000 | 92.3077 | 69.5312 | 36 | 0 | 36 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7765 | 93.8813 | 99.8559 | 30.0168 | 2056 | 134 | 2079 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.9847 | 92.4337 | 99.8195 | 35.5314 | 1637 | 134 | 1659 | 3 | 3 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5441 | 97.3505 | 99.7673 | 61.8300 | 1286 | 35 | 1286 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | I6_15 | map_siren | * | 97.5042 | 96.0656 | 98.9865 | 86.0902 | 293 | 12 | 293 | 3 | 1 | 33.3333 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | homalt | 45.7370 | 29.6539 | 99.9402 | 85.9137 | 5013 | 11892 | 5013 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | homalt | 47.2295 | 30.9206 | 99.9447 | 86.7543 | 5421 | 12111 | 5421 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5726 | 99.1784 | 99.9701 | 49.4910 | 10019 | 83 | 10019 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7826 | 99.6279 | 99.9378 | 69.6768 | 4819 | 18 | 4819 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7614 | 99.6188 | 99.9044 | 71.9607 | 3136 | 12 | 3136 | 3 | 3 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5515 | 99.1544 | 99.9518 | 47.1169 | 6215 | 53 | 6215 | 3 | 3 | 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 | * | 99.4469 | 98.9759 | 99.9224 | 33.5509 | 3866 | 40 | 3865 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | map_l100_m1_e0 | homalt | 61.0965 | 43.9922 | 99.9620 | 75.5921 | 7901 | 10059 | 7901 | 3 | 3 | 100.0000 | |