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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 | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
84851-84900 / 86044 show all | |||||||||||||||
hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4337 | 98.8739 | 100.0000 | 84.5259 | 439 | 5 | 439 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.7382 | 99.4778 | 100.0000 | 83.0516 | 381 | 2 | 381 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7927 | 99.5863 | 100.0000 | 78.9598 | 2407 | 10 | 2407 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.9134 | 99.8615 | 99.9653 | 69.5900 | 11536 | 16 | 11536 | 4 | 3 | 75.0000 | |
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.9407 | 99.8815 | 100.0000 | 65.2514 | 1686 | 2 | 1686 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 96.6667 | 6 | 0 | 6 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_diTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9318 | 99.9091 | 99.9545 | 42.4084 | 2199 | 2 | 2199 | 1 | 1 | 100.0000 | |
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 100.0000 | 100.0000 | 100.0000 | 36.5834 | 3987 | 0 | 3987 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.0588 | 94.2857 | 100.0000 | 93.2099 | 33 | 2 | 33 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_quadTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9650 | 100.0000 | 99.9300 | 30.2053 | 1427 | 0 | 1427 | 1 | 1 | 100.0000 | |
hfeng-pmm1 | SNP | ti | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 96.2963 | 2 | 0 | 2 | 0 | 0 | ||
hfeng-pmm1 | SNP | ti | map_l100_m0_e0 | homalt | 99.7619 | 99.7170 | 99.8069 | 63.0178 | 7752 | 22 | 7752 | 15 | 6 | 40.0000 | |
hfeng-pmm1 | SNP | ti | map_l100_m1_e0 | homalt | 99.8580 | 99.8385 | 99.8775 | 60.1505 | 17931 | 29 | 17931 | 22 | 12 | 54.5455 | |
hfeng-pmm1 | SNP | ti | map_l100_m2_e0 | homalt | 99.8607 | 99.8416 | 99.8798 | 62.5925 | 18280 | 29 | 18280 | 22 | 12 | 54.5455 | |
hfeng-pmm1 | SNP | ti | map_l100_m2_e1 | homalt | 99.8621 | 99.8432 | 99.8810 | 62.5754 | 18465 | 29 | 18465 | 22 | 12 | 54.5455 | |
hfeng-pmm1 | SNP | ti | map_l125_m0_e0 | homalt | 99.6547 | 99.6215 | 99.6881 | 70.0040 | 4474 | 17 | 4474 | 14 | 5 | 35.7143 | |
hfeng-pmm1 | SNP | ti | map_l125_m1_e0 | homalt | 99.8143 | 99.7827 | 99.8460 | 66.1307 | 11021 | 24 | 11021 | 17 | 7 | 41.1765 | |
hfeng-pmm1 | SNP | ti | map_l125_m2_e0 | homalt | 99.8195 | 99.7887 | 99.8502 | 68.6124 | 11334 | 24 | 11334 | 17 | 7 | 41.1765 | |
hfeng-pmm1 | SNP | ti | map_l125_m2_e1 | homalt | 99.8210 | 99.7905 | 99.8515 | 68.6411 | 11434 | 24 | 11434 | 17 | 7 | 41.1765 | |
hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | homalt | 99.6199 | 99.6740 | 99.5658 | 75.8370 | 2752 | 9 | 2752 | 12 | 4 | 33.3333 | |
hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | homalt | 99.7748 | 99.7543 | 99.7952 | 71.0227 | 7309 | 18 | 7309 | 15 | 6 | 40.0000 | |
hfeng-pmm1 | SNP | ti | map_l150_m2_e0 | homalt | 99.7833 | 99.7637 | 99.8030 | 73.2106 | 7598 | 18 | 7598 | 15 | 6 | 40.0000 | |
hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | homalt | 99.7855 | 99.7660 | 99.8049 | 73.2531 | 7675 | 18 | 7675 | 15 | 6 | 40.0000 | |
hfeng-pmm1 | SNP | ti | map_l250_m0_e0 | homalt | 99.0847 | 99.3119 | 98.8584 | 92.1786 | 433 | 3 | 433 | 5 | 2 | 40.0000 | |
hfeng-pmm1 | SNP | ti | map_l250_m1_e0 | homalt | 99.4712 | 99.5022 | 99.4403 | 86.8852 | 1599 | 8 | 1599 | 9 | 2 | 22.2222 | |
hfeng-pmm1 | SNP | ti | map_l250_m2_e0 | homalt | 99.5141 | 99.5426 | 99.4857 | 87.7793 | 1741 | 8 | 1741 | 9 | 2 | 22.2222 | |
hfeng-pmm1 | SNP | ti | map_l250_m2_e1 | homalt | 99.5205 | 99.5485 | 99.4924 | 87.8161 | 1764 | 8 | 1764 | 9 | 2 | 22.2222 | |
hfeng-pmm1 | SNP | ti | map_siren | homalt | 99.9011 | 99.8760 | 99.9261 | 52.1075 | 37869 | 47 | 37865 | 28 | 18 | 64.2857 | |
hfeng-pmm1 | SNP | ti | segdup | homalt | 99.9467 | 99.9600 | 99.9334 | 88.2045 | 7502 | 3 | 7502 | 5 | 5 | 100.0000 | |
hfeng-pmm1 | SNP | ti | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | ti | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 42.2535 | 41 | 0 | 41 | 0 | 0 | ||
hfeng-pmm1 | SNP | tv | * | homalt | 99.9869 | 99.9841 | 99.9897 | 20.7747 | 377063 | 60 | 377056 | 39 | 21 | 53.8462 | |
hfeng-pmm1 | SNP | tv | HG002complexvar | homalt | 99.9763 | 99.9664 | 99.9863 | 22.9407 | 95079 | 32 | 95072 | 13 | 11 | 84.6154 | |
hfeng-pmm1 | SNP | tv | HG002compoundhet | homalt | 99.8229 | 99.7934 | 99.8523 | 42.7460 | 3381 | 7 | 3381 | 5 | 5 | 100.0000 | |
hfeng-pmm1 | SNP | tv | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | tv | func_cds | homalt | 100.0000 | 100.0000 | 100.0000 | 25.9774 | 1704 | 0 | 1704 | 0 | 0 | ||
hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.6176 | 99.4275 | 99.8084 | 67.3342 | 521 | 3 | 521 | 1 | 1 | 100.0000 | |
hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9059 | 99.8514 | 99.9603 | 61.6429 | 10082 | 15 | 10082 | 4 | 4 | 100.0000 | |
hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8339 | 99.7418 | 99.9261 | 75.6588 | 5409 | 14 | 5409 | 4 | 2 | 50.0000 | |
hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 53.3915 | 481 | 0 | 481 | 0 | 0 | ||
hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 62.7135 | 786 | 0 | 786 | 0 | 0 | ||
hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 67.7914 | 525 | 0 | 525 | 0 | 0 | ||
ghariani-varprowl | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 55.1724 | 38 | 1 | 38 | 1 | 0 | 0.0000 | |
hfeng-pmm1 | INDEL | * | * | homalt | 99.6836 | 99.7787 | 99.5886 | 55.4406 | 124895 | 277 | 124903 | 516 | 501 | 97.0930 | |
hfeng-pmm1 | INDEL | * | HG002complexvar | homalt | 99.7782 | 99.8372 | 99.7192 | 55.9241 | 26983 | 44 | 26991 | 76 | 70 | 92.1053 |