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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17351-17400 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 30.4348 | 95.4858 | 0 | 0 | 14 | 32 | 4 | 12.5000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 61.5021 | 60.6742 | 62.3529 | 71.9472 | 54 | 35 | 53 | 32 | 22 | 68.7500 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.4853 | 92.4528 | 60.9756 | 70.1818 | 49 | 4 | 50 | 32 | 22 | 68.7500 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e1 | * | 97.8272 | 97.9257 | 97.7289 | 86.7675 | 1133 | 24 | 1377 | 32 | 17 | 53.1250 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.3107 | 93.3144 | 95.3285 | 30.1733 | 656 | 47 | 653 | 32 | 31 | 96.8750 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 42.3430 | 32.4324 | 60.9756 | 37.4046 | 12 | 25 | 50 | 32 | 32 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 77.0302 | 66.6667 | 91.2088 | 61.5222 | 192 | 96 | 332 | 32 | 14 | 43.7500 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m2_e0 | homalt | 97.3779 | 98.3051 | 96.4680 | 82.5231 | 522 | 9 | 874 | 32 | 29 | 90.6250 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m2_e1 | homalt | 97.3281 | 98.1481 | 96.5217 | 82.5526 | 530 | 10 | 888 | 32 | 29 | 90.6250 | |
| gduggal-bwavard | SNP | ti | map_siren | homalt | 98.3235 | 96.7850 | 99.9118 | 51.1238 | 36697 | 1219 | 36241 | 32 | 28 | 87.5000 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7221 | 99.9521 | 99.4931 | 42.7028 | 6265 | 3 | 6281 | 32 | 9 | 28.1250 | |
| gduggal-bwafb | INDEL | * | map_l125_m1_e0 | het | 96.0719 | 94.6067 | 97.5831 | 85.2463 | 1263 | 72 | 1292 | 32 | 2 | 6.2500 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e0 | het | 96.1556 | 94.6801 | 97.6778 | 86.3185 | 1317 | 74 | 1346 | 32 | 2 | 6.2500 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m1_e0 | * | 97.6299 | 97.0238 | 98.2437 | 83.5797 | 1793 | 55 | 1790 | 32 | 6 | 18.7500 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m2_e0 | * | 97.6865 | 97.0757 | 98.3051 | 84.3163 | 1859 | 56 | 1856 | 32 | 6 | 18.7500 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 81.7356 | 74.1096 | 91.1111 | 54.0230 | 1623 | 567 | 328 | 32 | 32 | 100.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3744 | 99.5648 | 99.1847 | 37.2000 | 3889 | 17 | 3893 | 32 | 7 | 21.8750 | |
| rpoplin-dv42 | INDEL | * | map_l100_m0_e0 | * | 97.4296 | 96.9290 | 97.9355 | 98.6839 | 1515 | 48 | 1518 | 32 | 12 | 37.5000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | * | 98.0229 | 97.5795 | 98.4704 | 98.6389 | 2056 | 51 | 2060 | 32 | 13 | 40.6250 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e0 | * | 98.0800 | 97.6321 | 98.5321 | 98.7156 | 2144 | 52 | 2148 | 32 | 13 | 40.6250 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002complexvar | * | 93.7832 | 90.4507 | 97.3706 | 62.1815 | 1184 | 125 | 1185 | 32 | 29 | 90.6250 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | homalt | 99.7682 | 99.8331 | 99.7035 | 35.1268 | 10764 | 18 | 10759 | 32 | 29 | 90.6250 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.5932 | 99.6513 | 99.5352 | 81.3843 | 6859 | 24 | 6853 | 32 | 18 | 56.2500 | |
| rpoplin-dv42 | SNP | * | map_l150_m1_e0 | homalt | 99.3277 | 98.9444 | 99.7139 | 71.2907 | 11154 | 119 | 11154 | 32 | 31 | 96.8750 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8658 | 99.8462 | 99.8855 | 53.8968 | 27916 | 43 | 27913 | 32 | 19 | 59.3750 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9783 | 95.8147 | 98.1704 | 65.8532 | 1717 | 75 | 1717 | 32 | 26 | 81.2500 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.8162 | 92.9554 | 98.8588 | 48.8601 | 2771 | 210 | 2772 | 32 | 27 | 84.3750 | |
| raldana-dualsentieon | SNP | * | func_cds | * | 99.8926 | 99.9614 | 99.8239 | 23.4025 | 18143 | 7 | 18140 | 32 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | * | func_cds | het | 99.8299 | 99.9462 | 99.7139 | 24.9799 | 11155 | 6 | 11152 | 32 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002complexvar | homalt | 98.6168 | 99.8353 | 97.4277 | 55.0578 | 1212 | 2 | 1212 | 32 | 32 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | * | 98.5906 | 98.2998 | 98.8831 | 88.2437 | 2833 | 49 | 2833 | 32 | 7 | 21.8750 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e1 | * | 98.6071 | 98.3196 | 98.8962 | 88.3190 | 2867 | 49 | 2867 | 32 | 7 | 21.8750 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9153 | 98.1365 | 99.7066 | 60.6969 | 10901 | 207 | 10875 | 32 | 10 | 31.2500 | |
| hfeng-pmm2 | INDEL | * | map_l150_m1_e0 | het | 97.3465 | 98.3626 | 96.3512 | 90.4715 | 841 | 14 | 845 | 32 | 3 | 9.3750 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.9803 | 97.1761 | 94.8136 | 51.0706 | 585 | 17 | 585 | 32 | 31 | 96.8750 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6199 | 97.4770 | 99.7898 | 71.4168 | 15184 | 393 | 15192 | 32 | 22 | 68.7500 | |
| hfeng-pmm3 | SNP | * | HG002compoundhet | * | 97.8284 | 95.8679 | 99.8709 | 39.6499 | 24755 | 1067 | 24755 | 32 | 15 | 46.8750 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1881 | 98.4782 | 99.9083 | 59.9451 | 34880 | 539 | 34871 | 32 | 8 | 25.0000 | |
| hfeng-pmm3 | SNP | ti | map_l250_m1_e0 | het | 98.8707 | 98.8208 | 98.9207 | 89.0542 | 2933 | 35 | 2933 | 32 | 3 | 9.3750 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e0 | het | 98.9700 | 98.9244 | 99.0157 | 89.3221 | 3219 | 35 | 3219 | 32 | 3 | 9.3750 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e1 | het | 98.9688 | 98.9088 | 99.0288 | 89.4045 | 3263 | 36 | 3263 | 32 | 3 | 9.3750 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.7361 | 92.4350 | 99.2817 | 26.1684 | 4411 | 361 | 4423 | 32 | 26 | 81.2500 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.8131 | 85.8283 | 96.4126 | 64.6593 | 860 | 142 | 860 | 32 | 26 | 81.2500 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.8349 | 99.1243 | 94.6488 | 66.0998 | 566 | 5 | 566 | 32 | 32 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.4321 | 87.4402 | 95.8060 | 67.3513 | 731 | 105 | 731 | 32 | 29 | 90.6250 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8835 | 99.1132 | 98.6549 | 87.3860 | 2347 | 21 | 2347 | 32 | 17 | 53.1250 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7791 | 99.8466 | 99.7116 | 58.4535 | 11067 | 17 | 11063 | 32 | 3 | 9.3750 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | het | 98.3050 | 98.0061 | 98.6057 | 84.0570 | 2261 | 46 | 2263 | 32 | 9 | 28.1250 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | het | 98.3311 | 98.0367 | 98.6272 | 84.1536 | 2297 | 46 | 2299 | 32 | 9 | 28.1250 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5170 | 99.7054 | 99.3293 | 39.8437 | 4739 | 14 | 4739 | 32 | 32 | 100.0000 | |