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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84151-84200 / 86044 show all | |||||||||||||||
| 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 | hetalt | 96.6029 | 93.5337 | 99.8803 | 39.4384 | 3298 | 228 | 3339 | 4 | 4 | 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_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0377 | 88.9807 | 99.7041 | 43.6667 | 323 | 40 | 337 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.8889 | 100.0000 | 80.0000 | 79.4521 | 24 | 0 | 24 | 6 | 6 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3956 | 93.1863 | 99.8338 | 31.7550 | 2366 | 173 | 2403 | 4 | 4 | 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_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.3003 | 93.0030 | 99.8400 | 33.3511 | 2459 | 185 | 2496 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6029 | 93.5337 | 99.8803 | 39.4384 | 3298 | 228 | 3339 | 4 | 4 | 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_diTR_51to200 | hetalt | 83.4015 | 72.2892 | 98.5507 | 28.8660 | 60 | 23 | 68 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5392 | 100.0000 | 99.0826 | 67.8940 | 216 | 0 | 216 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | * | hetalt | 97.4148 | 95.1780 | 99.7593 | 54.6645 | 829 | 42 | 829 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5116 | 99.0847 | 99.9423 | 61.0562 | 1732 | 16 | 1732 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5376 | 99.1089 | 99.9700 | 56.4901 | 20019 | 180 | 20019 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9677 | 97.9853 | 99.9699 | 67.4084 | 16633 | 342 | 16633 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.6885 | 99.4406 | 99.9375 | 43.4875 | 1600 | 9 | 1600 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3658 | 98.8433 | 99.8937 | 85.4985 | 940 | 11 | 940 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.1784 | 99.8818 | 84.5845 | 845 | 7 | 845 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6927 | 99.4381 | 99.9487 | 76.0337 | 3893 | 22 | 3893 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9677 | 97.9853 | 99.9699 | 67.4084 | 16633 | 342 | 16633 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7680 | 99.5658 | 99.9709 | 62.5612 | 3440 | 15 | 3440 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3474 | 98.7681 | 99.9335 | 54.7798 | 6013 | 75 | 6013 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.5047 | 99.0504 | 99.9631 | 30.7908 | 2712 | 26 | 2712 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | homalt | 38.4351 | 23.7914 | 99.9627 | 90.5070 | 2682 | 8591 | 2682 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l150_m2_e0 | homalt | 40.0656 | 25.0534 | 99.9659 | 91.0042 | 2931 | 8768 | 2931 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l150_m2_e1 | homalt | 40.3024 | 25.2389 | 99.9665 | 90.9405 | 2985 | 8842 | 2985 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_siren | hetalt | 70.8661 | 55.5556 | 97.8261 | 87.6676 | 45 | 36 | 45 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | * | map_siren | homalt | 75.3334 | 60.4322 | 99.9880 | 62.9988 | 33332 | 21824 | 33323 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | * | segdup | homalt | 98.5850 | 97.2820 | 99.9235 | 88.7282 | 10451 | 292 | 10451 | 8 | 8 | 100.0000 | |
| ckim-vqsr | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 49.0196 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 47.0588 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | * | hetalt | 97.3638 | 95.1890 | 99.6403 | 53.2773 | 554 | 28 | 554 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | HG002complexvar | homalt | 98.3712 | 96.8046 | 99.9893 | 18.7775 | 187281 | 6182 | 187271 | 20 | 20 | 100.0000 | |
| ckim-vqsr | SNP | ti | HG002compoundhet | homalt | 98.6436 | 97.3763 | 99.9445 | 31.0556 | 7200 | 194 | 7200 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.3840 | 98.8562 | 99.9174 | 59.5119 | 1210 | 14 | 1210 | 1 | 1 | 100.0000 | |
| 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_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8752 | 97.7839 | 99.9911 | 64.2557 | 11296 | 256 | 11296 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.5998 | 99.2908 | 99.9108 | 42.6598 | 1120 | 8 | 1120 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7064 | 96.3801 | 99.0698 | 91.1230 | 213 | 8 | 213 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3873 | 147 | 5 | 147 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6889 | 99.4208 | 99.9584 | 73.0221 | 2403 | 14 | 2403 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8752 | 97.7839 | 99.9911 | 64.2557 | 11296 | 256 | 11296 | 1 | 1 | 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_homopolymer_6to10 | het | 99.6545 | 99.3358 | 99.9752 | 49.3288 | 4038 | 27 | 4038 | 1 | 1 | 100.0000 | |