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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30801-30850 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.2551 | 77.6765 | 99.5283 | 34.8694 | 341 | 98 | 422 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 70.5882 | 75.0000 | 66.6667 | 89.4737 | 6 | 2 | 4 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 78.7879 | 86.6667 | 72.2222 | 94.9861 | 13 | 2 | 13 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | homalt | 80.0000 | 87.5000 | 73.6842 | 95.5916 | 14 | 2 | 14 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 80.0000 | 87.5000 | 73.6842 | 95.6221 | 14 | 2 | 14 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_siren | het | 87.6125 | 93.5897 | 82.3529 | 95.8313 | 73 | 5 | 70 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8372 | 98.8372 | 98.8372 | 62.4454 | 255 | 3 | 255 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5296 | 99.5296 | 99.5296 | 81.1592 | 1058 | 5 | 1058 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.7931 | 90.6667 | 97.1429 | 62.7660 | 68 | 7 | 68 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 89.4716 | 98.2609 | 82.1256 | 91.8808 | 339 | 6 | 340 | 74 | 2 | 2.7027 | |
| jlack-gatk | INDEL | D1_5 | map_siren | homalt | 99.3983 | 98.9726 | 99.8277 | 79.2900 | 1156 | 12 | 1159 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | segdup | homalt | 99.5828 | 99.7214 | 99.4444 | 94.1766 | 358 | 1 | 358 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5374 | 99.6524 | 99.4226 | 63.8866 | 860 | 3 | 861 | 5 | 2 | 40.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.2274 | 98.8722 | 95.6364 | 82.7370 | 263 | 3 | 263 | 12 | 2 | 16.6667 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 41.2281 | 82.4561 | 27.4854 | 98.2013 | 47 | 10 | 47 | 124 | 2 | 1.6129 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2867 | 99.0043 | 99.5708 | 47.6796 | 696 | 7 | 696 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.0289 | 93.6620 | 98.5185 | 45.3441 | 133 | 9 | 133 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 89.8148 | 94.1748 | 85.8407 | 90.7453 | 97 | 6 | 97 | 16 | 2 | 12.5000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 87.2180 | 96.6667 | 79.4521 | 92.0131 | 58 | 2 | 58 | 15 | 2 | 13.3333 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e1 | homalt | 97.7778 | 98.5075 | 97.0588 | 85.2495 | 66 | 1 | 66 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l125_m2_e1 | * | 92.0152 | 94.5312 | 89.6296 | 92.3164 | 121 | 7 | 121 | 14 | 2 | 14.2857 | |
| jlack-gatk | INDEL | D6_15 | map_siren | homalt | 98.0843 | 98.4615 | 97.7099 | 81.5752 | 128 | 2 | 128 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | D6_15 | segdup | het | 90.9091 | 97.8261 | 84.9057 | 96.1483 | 90 | 2 | 90 | 16 | 2 | 12.5000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.3650 | 91.5952 | 99.4585 | 65.4829 | 534 | 49 | 551 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.2963 | 96.2963 | 96.2963 | 89.2430 | 104 | 4 | 104 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.0000 | 100.0000 | 92.3077 | 91.4191 | 24 | 0 | 24 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.0282 | 97.7528 | 98.3051 | 80.7818 | 174 | 4 | 174 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.2222 | 100.0000 | 94.5946 | 84.2553 | 35 | 0 | 35 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | * | func_cds | * | 97.6994 | 99.7753 | 95.7082 | 54.1790 | 444 | 1 | 446 | 20 | 1 | 5.0000 | |
| jlack-gatk | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 37.6374 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.0039 | 92.7039 | 99.5475 | 76.9311 | 216 | 17 | 220 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 96.0998 | 93.1818 | 99.2063 | 80.5855 | 123 | 9 | 125 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 87.1795 | 80.9524 | 94.4444 | 99.9625 | 17 | 4 | 17 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l150_m0_e0 | het | 88.0882 | 97.0674 | 80.6295 | 94.9157 | 331 | 10 | 333 | 80 | 1 | 1.2500 | |
| jlack-gatk | INDEL | * | map_l250_m0_e0 | * | 82.6816 | 94.8718 | 73.2673 | 98.2753 | 74 | 4 | 74 | 27 | 1 | 3.7037 | |
| jlack-gatk | INDEL | * | map_l250_m0_e0 | homalt | 98.0392 | 100.0000 | 96.1538 | 97.3604 | 25 | 0 | 25 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l250_m1_e0 | het | 85.8491 | 95.7895 | 77.7778 | 97.3448 | 182 | 8 | 182 | 52 | 1 | 1.9231 | |
| jlack-gatk | INDEL | * | map_l250_m2_e0 | het | 87.0690 | 96.1905 | 79.5276 | 97.4716 | 202 | 8 | 202 | 52 | 1 | 1.9231 | |
| jlack-gatk | INDEL | * | map_l250_m2_e1 | het | 87.1245 | 96.2085 | 79.6078 | 97.5319 | 203 | 8 | 203 | 52 | 1 | 1.9231 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8439 | 99.4186 | 98.2759 | 80.9001 | 171 | 1 | 171 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5851 | 99.7230 | 99.4475 | 62.7955 | 360 | 1 | 360 | 2 | 1 | 50.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7831 | 100.0000 | 99.5671 | 71.3400 | 230 | 0 | 230 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.2963 | 100.0000 | 92.8571 | 46.1538 | 13 | 0 | 13 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | * | 74.1935 | 82.1429 | 67.6471 | 96.4876 | 23 | 5 | 23 | 11 | 1 | 9.0909 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | homalt | 61.5385 | 80.0000 | 50.0000 | 95.6989 | 4 | 1 | 4 | 4 | 1 | 25.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m0_e0 | * | 81.4815 | 91.6667 | 73.3333 | 97.2727 | 11 | 1 | 11 | 4 | 1 | 25.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m0_e0 | homalt | 80.0000 | 100.0000 | 66.6667 | 96.8750 | 2 | 0 | 2 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m1_e0 | * | 89.2857 | 92.5926 | 86.2069 | 97.0010 | 25 | 2 | 25 | 4 | 1 | 25.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m1_e0 | homalt | 88.8889 | 100.0000 | 80.0000 | 97.3684 | 4 | 0 | 4 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_l125_m2_e0 | * | 87.7193 | 92.5926 | 83.3333 | 97.3545 | 25 | 2 | 25 | 5 | 1 | 20.0000 | |