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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55751-55800 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3017 | 99.1632 | 99.4406 | 55.8914 | 711 | 6 | 711 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 84.8485 | 93.3333 | 77.7778 | 93.2836 | 14 | 1 | 14 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m2_e0 | homalt | 85.7143 | 93.7500 | 78.9474 | 93.8907 | 15 | 1 | 15 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 85.7143 | 93.7500 | 78.9474 | 93.9683 | 15 | 1 | 15 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m1_e0 | * | 93.1034 | 100.0000 | 87.0968 | 94.5133 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m2_e0 | * | 93.1034 | 100.0000 | 87.0968 | 95.2888 | 27 | 0 | 27 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l125_m2_e1 | * | 91.5254 | 96.4286 | 87.0968 | 95.4210 | 27 | 1 | 27 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l150_m2_e0 | * | 89.4737 | 100.0000 | 80.9524 | 95.0237 | 17 | 0 | 17 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l150_m2_e1 | * | 87.1795 | 94.4444 | 80.9524 | 95.1276 | 17 | 1 | 17 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_siren | homalt | 91.4286 | 94.1176 | 88.8889 | 91.7051 | 32 | 2 | 32 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | segdup | * | 94.9153 | 96.5517 | 93.3333 | 95.3811 | 56 | 2 | 56 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | segdup | het | 94.5946 | 100.0000 | 89.7436 | 95.7330 | 37 | 0 | 35 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8909 | 99.8909 | 99.8909 | 48.7917 | 3662 | 4 | 3662 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m0_e0 | het | 97.3547 | 95.9420 | 98.8095 | 83.7916 | 331 | 14 | 332 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m0_e0 | * | 97.7337 | 96.8858 | 98.5965 | 88.2183 | 280 | 9 | 281 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m1_e0 | * | 97.0530 | 95.7364 | 98.4064 | 83.5733 | 247 | 11 | 247 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m1_e0 | het | 97.2332 | 97.6190 | 96.8504 | 86.2256 | 123 | 3 | 123 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | * | 96.9231 | 95.4545 | 98.4375 | 84.3807 | 252 | 12 | 252 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | het | 96.9466 | 96.9466 | 96.9466 | 86.8606 | 127 | 4 | 127 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e1 | * | 96.8577 | 95.2727 | 98.4962 | 84.2230 | 262 | 13 | 262 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e1 | het | 97.0370 | 97.0370 | 97.0370 | 86.7257 | 131 | 4 | 131 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | segdup | * | 96.0000 | 94.2408 | 97.8261 | 92.8377 | 180 | 11 | 180 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6970 | 85.0575 | 94.8718 | 84.4000 | 74 | 13 | 74 | 4 | 2 | 50.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2107 | 98.8095 | 97.6190 | 76.5363 | 166 | 2 | 164 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | map_siren | het | 94.0000 | 95.9184 | 92.1569 | 90.3774 | 47 | 2 | 47 | 4 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5579 | 99.8227 | 99.2945 | 72.0827 | 563 | 1 | 563 | 4 | 4 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6608 | 99.4733 | 99.8491 | 69.3074 | 2644 | 14 | 2646 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I16_PLUS | map_siren | het | 95.0495 | 97.9592 | 92.3077 | 92.5926 | 48 | 1 | 48 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6329 | 99.5598 | 99.7061 | 77.3995 | 1357 | 6 | 1357 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6267 | 91.7101 | 99.8927 | 27.2780 | 3695 | 334 | 3723 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.6728 | 91.8003 | 99.8864 | 30.0913 | 3493 | 312 | 3518 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7938 | 100.0000 | 99.5885 | 64.0133 | 968 | 0 | 968 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2570 | 99.3617 | 99.1525 | 68.8860 | 467 | 3 | 468 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.8067 | 99.5192 | 98.1043 | 80.8182 | 207 | 1 | 207 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m0_e0 | homalt | 98.2759 | 100.0000 | 96.6102 | 85.5037 | 114 | 0 | 114 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | homalt | 99.0854 | 99.3884 | 98.7842 | 83.4006 | 325 | 2 | 325 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e0 | homalt | 98.9751 | 99.1202 | 98.8304 | 84.6843 | 338 | 3 | 338 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | homalt | 98.9811 | 99.1254 | 98.8372 | 84.8791 | 340 | 3 | 340 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.4925 | 98.9899 | 98.0000 | 87.0718 | 196 | 2 | 196 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.5149 | 99.0050 | 98.0296 | 88.4725 | 199 | 2 | 199 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5366 | 99.0196 | 98.0583 | 88.5237 | 202 | 2 | 202 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002compoundhet | hetalt | 94.0390 | 88.7900 | 99.9475 | 29.7817 | 7580 | 957 | 7621 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.7500 | 92.5926 | 94.9367 | 79.3194 | 75 | 6 | 75 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.8723 | 100.0000 | 95.8333 | 68.4211 | 92 | 0 | 92 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.4586 | 91.4533 | 99.8307 | 34.9752 | 2322 | 217 | 2359 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.3785 | 91.3011 | 99.8371 | 36.7431 | 2414 | 230 | 2451 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 76.9231 | 65.2174 | 93.7500 | 58.4416 | 60 | 32 | 60 | 4 | 1 | 25.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m0_e0 | * | 87.8788 | 87.8788 | 87.8788 | 93.2927 | 29 | 4 | 29 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l100_m0_e0 | het | 80.0000 | 82.3529 | 77.7778 | 94.5619 | 14 | 3 | 14 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | * | 86.2745 | 88.0000 | 84.6154 | 95.7861 | 22 | 3 | 22 | 4 | 0 | 0.0000 | |