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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66751-66800 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.9472 | 94.6281 | 97.3036 | 80.6048 | 916 | 52 | 830 | 23 | 15 | 65.2174 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5197 | 99.6701 | 99.3697 | 56.7552 | 3626 | 12 | 3626 | 23 | 21 | 91.3043 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 88.8218 | 91.3043 | 86.4706 | 35.3612 | 147 | 14 | 147 | 23 | 23 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2813 | 99.1758 | 99.3872 | 70.5555 | 3730 | 31 | 3730 | 23 | 22 | 95.6522 | |
| hfeng-pmm1 | INDEL | * | segdup | * | 99.0215 | 98.9437 | 99.0995 | 94.0294 | 2529 | 27 | 2531 | 23 | 4 | 17.3913 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.4189 | 97.8723 | 96.9697 | 59.4335 | 736 | 16 | 736 | 23 | 23 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.9895 | 89.5064 | 98.9454 | 55.5533 | 2158 | 253 | 2158 | 23 | 21 | 91.3043 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2411 | 99.0960 | 99.3867 | 70.6527 | 3727 | 34 | 3727 | 23 | 22 | 95.6522 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4965 | 92.9078 | 98.2335 | 72.2151 | 1310 | 100 | 1279 | 23 | 15 | 65.2174 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.9354 | 99.0237 | 96.8707 | 88.7477 | 710 | 7 | 712 | 23 | 3 | 13.0435 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0583 | 99.0826 | 97.0551 | 89.2528 | 756 | 7 | 758 | 23 | 3 | 13.0435 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | het | 99.4756 | 99.0819 | 99.8724 | 57.6818 | 18022 | 167 | 18002 | 23 | 11 | 47.8261 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5485 | 99.7455 | 99.3523 | 71.7771 | 3528 | 9 | 3528 | 23 | 22 | 95.6522 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1586 | 95.2030 | 99.1964 | 50.6041 | 2838 | 143 | 2839 | 23 | 18 | 78.2609 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.4084 | 97.3342 | 99.5065 | 66.1830 | 4637 | 127 | 4638 | 23 | 1 | 4.3478 | |
| hfeng-pmm2 | SNP | * | map_l150_m0_e0 | homalt | 99.5726 | 99.7065 | 99.4390 | 76.7349 | 4077 | 12 | 4077 | 23 | 8 | 34.7826 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3761 | 98.8412 | 99.9168 | 52.9178 | 27635 | 324 | 27634 | 23 | 3 | 13.0435 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.4421 | 93.6983 | 97.2521 | 80.7365 | 907 | 61 | 814 | 23 | 16 | 69.5652 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.8585 | 94.6327 | 99.1916 | 50.2361 | 2821 | 160 | 2822 | 23 | 18 | 78.2609 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002complexvar | homalt | 99.8492 | 99.9151 | 99.7834 | 59.8813 | 10589 | 9 | 10594 | 23 | 21 | 91.3043 | |
| raldana-dualsentieon | SNP | * | HG002compoundhet | * | 97.7792 | 95.7401 | 99.9071 | 39.6169 | 24722 | 1100 | 24722 | 23 | 15 | 65.2174 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5475 | 95.7291 | 99.4363 | 77.3949 | 4057 | 181 | 4057 | 23 | 3 | 13.0435 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.0405 | 84.0481 | 99.3020 | 38.2843 | 3214 | 610 | 3272 | 23 | 23 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | het | 97.6418 | 96.9460 | 98.3477 | 87.0294 | 1365 | 43 | 1369 | 23 | 8 | 34.7826 | |
| rpoplin-dv42 | SNP | tv | map_siren | homalt | 99.7328 | 99.5998 | 99.8662 | 55.9755 | 17171 | 69 | 17169 | 23 | 21 | 91.3043 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m1_e0 | * | 98.7016 | 98.6472 | 98.7561 | 82.9460 | 1823 | 25 | 1826 | 23 | 9 | 39.1304 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e0 | * | 98.7206 | 98.6423 | 98.7990 | 83.5904 | 1889 | 26 | 1892 | 23 | 9 | 39.1304 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l100_m2_e1 | * | 98.7364 | 98.6591 | 98.8138 | 83.7031 | 1913 | 26 | 1916 | 23 | 9 | 39.1304 | |
| rpoplin-dv42 | INDEL | I1_5 | map_siren | het | 98.4530 | 98.2748 | 98.6318 | 80.8695 | 1652 | 29 | 1658 | 23 | 15 | 65.2174 | |
| rpoplin-dv42 | SNP | ti | map_l150_m1_e0 | homalt | 99.3702 | 99.0583 | 99.6841 | 71.0853 | 7258 | 69 | 7258 | 23 | 22 | 95.6522 | |
| rpoplin-dv42 | SNP | ti | map_l250_m0_e0 | * | 97.8365 | 97.3723 | 98.3051 | 92.1397 | 1334 | 36 | 1334 | 23 | 13 | 56.5217 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7294 | 97.9480 | 99.5234 | 39.3399 | 5012 | 105 | 5012 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.7563 | 99.8374 | 54.8306 | 14734 | 36 | 14736 | 24 | 17 | 70.8333 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7631 | 98.9728 | 98.5542 | 60.1632 | 1638 | 17 | 1636 | 24 | 21 | 87.5000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002complexvar | het | 93.4882 | 90.9774 | 96.1415 | 59.6889 | 605 | 60 | 598 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.6035 | 89.2202 | 94.1176 | 80.0098 | 389 | 47 | 384 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.3072 | 97.2880 | 99.3480 | 72.0840 | 3659 | 102 | 3657 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.3072 | 97.2880 | 99.3480 | 72.0840 | 3659 | 102 | 3657 | 24 | 22 | 91.6667 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e0 | homalt | 99.3810 | 99.0809 | 99.6830 | 73.3835 | 7546 | 70 | 7546 | 24 | 23 | 95.8333 | |
| rpoplin-dv42 | SNP | ti | map_l150_m2_e1 | homalt | 99.3872 | 99.0901 | 99.6862 | 73.4415 | 7623 | 70 | 7623 | 24 | 23 | 95.8333 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3801 | 97.1609 | 99.6303 | 75.8203 | 6468 | 189 | 6468 | 24 | 4 | 16.6667 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5094 | 99.3762 | 99.6429 | 67.2531 | 6691 | 42 | 6696 | 24 | 19 | 79.1667 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e1 | * | 97.8375 | 97.3593 | 98.3205 | 99.0326 | 1401 | 38 | 1405 | 24 | 12 | 50.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002complexvar | * | 96.5485 | 94.7048 | 98.4655 | 65.1748 | 1556 | 87 | 1540 | 24 | 18 | 75.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5586 | 84.7305 | 97.2477 | 63.2687 | 849 | 153 | 848 | 24 | 21 | 87.5000 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e0 | * | 98.7701 | 97.6843 | 99.8804 | 65.6662 | 20037 | 475 | 20041 | 24 | 7 | 29.1667 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e1 | * | 98.7779 | 97.6982 | 99.8816 | 65.7932 | 20246 | 477 | 20250 | 24 | 7 | 29.1667 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m0_e0 | het | 98.0155 | 96.4276 | 99.6566 | 50.1035 | 6964 | 258 | 6965 | 24 | 1 | 4.1667 | |