PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53401-53450 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.2339 | 98.8263 | 99.6450 | 83.3103 | 842 | 10 | 842 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6954 | 99.4790 | 99.9128 | 62.0351 | 3437 | 18 | 3437 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.2029 | 90.9091 | 97.7444 | 92.5113 | 130 | 13 | 130 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.4724 | 92.1569 | 96.9072 | 92.3682 | 94 | 8 | 94 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | hetalt | 93.9759 | 95.1220 | 92.8571 | 84.6154 | 39 | 2 | 39 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | hetalt | 94.1176 | 95.2381 | 93.0233 | 86.0841 | 40 | 2 | 40 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m2_e1 | hetalt | 94.2529 | 95.3488 | 93.1818 | 85.8065 | 41 | 2 | 41 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6683 | 99.4621 | 99.8754 | 72.2887 | 2404 | 13 | 2404 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9319 | 100.0000 | 99.8639 | 41.8470 | 2201 | 0 | 2201 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.7835 | 89.1089 | 96.7742 | 93.3045 | 90 | 11 | 90 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 93.0233 | 90.9091 | 95.2381 | 93.5252 | 60 | 6 | 60 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | hetalt | 93.3333 | 96.5517 | 90.3226 | 82.1839 | 28 | 1 | 28 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 93.5484 | 96.6667 | 90.6250 | 83.5897 | 29 | 1 | 29 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 93.7500 | 96.7742 | 90.9091 | 83.1633 | 30 | 1 | 30 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | ti | tech_badpromoters | * | 98.2659 | 100.0000 | 96.5909 | 46.0123 | 85 | 0 | 85 | 3 | 0 | 0.0000 | |
| jlack-gatk | SNP | ti | tech_badpromoters | het | 96.7033 | 100.0000 | 93.6170 | 48.9130 | 44 | 0 | 44 | 3 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | HG002complexvar | hetalt | 99.0323 | 99.0323 | 99.0323 | 39.5712 | 307 | 3 | 307 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.9752 | 93.9394 | 98.1013 | 91.0986 | 155 | 10 | 155 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4733 | 93.5484 | 97.4790 | 90.8672 | 116 | 8 | 116 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | tv | map_l100_m1_e0 | hetalt | 93.9759 | 95.1220 | 92.8571 | 84.6154 | 39 | 2 | 39 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | hetalt | 94.1176 | 95.2381 | 93.0233 | 86.0841 | 40 | 2 | 40 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 94.2529 | 95.3488 | 93.1818 | 85.8065 | 41 | 2 | 41 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.0441 | 87.4766 | 99.3684 | 70.7692 | 468 | 67 | 472 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9303 | 100.0000 | 99.8608 | 46.0035 | 2152 | 0 | 2152 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | * | map_l150_m0_e0 | homalt | 98.4802 | 98.7805 | 98.1818 | 90.1610 | 162 | 2 | 162 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9505 | 99.9307 | 99.9703 | 51.1679 | 10095 | 7 | 10095 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.9147 | 88.7681 | 99.6948 | 86.0725 | 980 | 124 | 980 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.5375 | 83.0556 | 99.5008 | 87.1910 | 598 | 122 | 598 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6765 | 99.4754 | 99.8784 | 28.4513 | 2465 | 13 | 2464 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9455 | 99.9208 | 99.9703 | 62.5348 | 10089 | 8 | 10089 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.1089 | 81.8182 | 97.8261 | 90.8911 | 135 | 30 | 135 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4759 | 99.0435 | 99.9122 | 35.7223 | 3417 | 33 | 3414 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1995 | 98.5500 | 99.8576 | 35.6051 | 2107 | 31 | 2104 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.6708 | 95.4660 | 99.9798 | 58.6016 | 14718 | 699 | 14835 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.2342 | 85.6776 | 99.8774 | 37.7987 | 2333 | 390 | 2444 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4426 | 95.0383 | 99.9718 | 29.9341 | 10554 | 551 | 10633 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4355 | 95.0263 | 99.9701 | 33.2469 | 9954 | 521 | 10036 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | map_l250_m1_e0 | homalt | 97.7169 | 98.1651 | 97.2727 | 93.5748 | 107 | 2 | 107 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 94.1971 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e1 | homalt | 97.8541 | 98.2759 | 97.4359 | 94.2927 | 114 | 2 | 114 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | D16_PLUS | * | hetalt | 96.6173 | 93.5851 | 99.8525 | 38.5313 | 1809 | 124 | 2031 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | hetalt | 96.5594 | 93.9271 | 99.3435 | 47.5316 | 232 | 15 | 454 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | homalt | 84.2105 | 100.0000 | 72.7273 | 76.0870 | 8 | 0 | 8 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2919 | 89.4359 | 99.7056 | 40.6868 | 872 | 103 | 1016 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6136 | 93.5785 | 99.8523 | 38.4918 | 1807 | 124 | 2028 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6136 | 93.5785 | 99.8523 | 38.4918 | 1807 | 124 | 2028 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 97.6378 | 97.6378 | 97.6378 | 50.0000 | 124 | 3 | 124 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6301 | 97.6017 | 99.6805 | 67.8425 | 936 | 23 | 936 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m0_e0 | het | 89.6047 | 94.7368 | 85.0000 | 95.3271 | 18 | 1 | 17 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l125_m1_e0 | * | 92.8571 | 96.2963 | 89.6552 | 95.1667 | 26 | 1 | 26 | 3 | 0 | 0.0000 | |