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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38801-38850 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.9091 | 83.3333 | 100.0000 | 83.3333 | 5 | 1 | 6 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6765 | 99.9590 | 99.3956 | 49.5528 | 2438 | 1 | 2467 | 15 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9417 | 99.8834 | 100.0000 | 47.3652 | 857 | 1 | 869 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | het | 87.2247 | 90.0000 | 84.6154 | 96.3483 | 9 | 1 | 11 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.9091 | 83.3333 | 100.0000 | 94.0476 | 5 | 1 | 5 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9300 | 99.9299 | 99.9300 | 24.2713 | 1426 | 1 | 1428 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.3333 | 87.5000 | 100.0000 | 94.6429 | 7 | 1 | 6 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 66.6667 | 50.0000 | 100.0000 | 92.8571 | 1 | 1 | 1 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 77.1930 | 12 | 1 | 13 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| ltrigg-rtg1 | SNP | tv | tech_badpromoters | * | 95.9459 | 98.6111 | 93.4211 | 57.0621 | 71 | 1 | 71 | 5 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | tech_badpromoters | homalt | 98.7013 | 97.4359 | 100.0000 | 54.7619 | 38 | 1 | 38 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | func_cds | hetalt | 88.8889 | 80.0000 | 100.0000 | 75.0000 | 4 | 1 | 5 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | func_cds | homalt | 99.7783 | 99.5575 | 100.0000 | 29.6875 | 225 | 1 | 225 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 98.9247 | 97.8723 | 100.0000 | 36.9863 | 46 | 1 | 46 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | map_l125_m0_e0 | hetalt | 95.2381 | 90.9091 | 100.0000 | 96.7742 | 10 | 1 | 12 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | map_l150_m0_e0 | hetalt | 94.1176 | 88.8889 | 100.0000 | 96.6777 | 8 | 1 | 10 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | tech_badpromoters | * | 98.0392 | 98.6842 | 97.4026 | 50.0000 | 75 | 1 | 75 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | tech_badpromoters | homalt | 98.4615 | 96.9697 | 100.0000 | 54.9296 | 32 | 1 | 32 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C1_5 | * | * | 91.7281 | 90.0000 | 93.5238 | 96.2656 | 9 | 1 | 982 | 68 | 6 | 8.8235 | |
| ltrigg-rtg2 | INDEL | C1_5 | * | het | 88.0848 | 88.8889 | 87.2951 | 96.3468 | 8 | 1 | 426 | 62 | 2 | 3.2258 | |
| ltrigg-rtg2 | INDEL | C1_5 | HG002complexvar | * | 91.9145 | 85.7143 | 99.0816 | 88.0866 | 6 | 1 | 971 | 9 | 3 | 33.3333 | |
| ltrigg-rtg2 | INDEL | C1_5 | HG002complexvar | het | 91.6047 | 85.7143 | 98.3645 | 86.9869 | 6 | 1 | 421 | 7 | 2 | 28.5714 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 78.3552 | 66.6667 | 95.0139 | 97.4690 | 2 | 1 | 343 | 18 | 1 | 5.5556 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 76.1364 | 66.6667 | 88.7417 | 97.5582 | 2 | 1 | 134 | 17 | 1 | 5.8824 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 92.2807 | 95.7828 | 0 | 1 | 263 | 22 | 4 | 18.1818 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 86.3636 | 95.4183 | 0 | 1 | 114 | 18 | 1 | 5.5556 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 92.2807 | 95.7828 | 0 | 1 | 263 | 22 | 4 | 18.1818 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 86.3636 | 95.4183 | 0 | 1 | 114 | 18 | 1 | 5.5556 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 86.6667 | 93.7931 | 0 | 1 | 78 | 12 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 75.5556 | 93.5065 | 0 | 1 | 34 | 11 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 83.3333 | 12 | 1 | 12 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.9363 | 99.8728 | 100.0000 | 62.5298 | 785 | 1 | 785 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7920 | 99.9306 | 99.6537 | 69.7338 | 1439 | 1 | 1439 | 5 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9047 | 99.8095 | 100.0000 | 67.8528 | 524 | 1 | 524 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.1176 | 88.8889 | 100.0000 | 95.5801 | 8 | 1 | 8 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| jmaeng-gatk | SNP | tv | tech_badpromoters | het | 98.4615 | 96.9697 | 100.0000 | 47.5410 | 32 | 1 | 32 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 51.8519 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | * | decoy | het | 83.3333 | 83.3333 | 83.3333 | 99.9657 | 5 | 1 | 5 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | * | decoy | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 1 | 0 | 0 | 0 | |||
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | * | 66.6667 | 66.6667 | 66.6667 | 97.8417 | 2 | 1 | 2 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| jpowers-varprowl | INDEL | C1_5 | * | * | 0.0000 | 90.0000 | 0.0000 | 0.0000 | 9 | 1 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | C1_5 | * | het | 0.0000 | 88.8889 | 0.0000 | 0.0000 | 8 | 1 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | C1_5 | HG002complexvar | * | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | C1_5 | HG002complexvar | het | 0.0000 | 85.7143 | 0.0000 | 0.0000 | 6 | 1 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 66.6667 | 0.0000 | 0.0000 | 2 | 1 | 0 | 0 | 0 | ||