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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23101-23150 / 86044 show all | |||||||||||||||
| 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 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9991 | 96.8351 | 99.1915 | 73.1225 | 15084 | 493 | 15091 | 123 | 94 | 76.4228 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.0988 | 99.0063 | 99.1915 | 87.6655 | 2690 | 27 | 2699 | 22 | 15 | 68.1818 | |
| gduggal-snapvard | SNP | tv | func_cds | * | 98.8510 | 98.5129 | 99.1913 | 36.1464 | 4306 | 65 | 4293 | 35 | 10 | 28.5714 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002complexvar | * | 98.1553 | 97.1411 | 99.1910 | 57.4123 | 4655 | 137 | 4659 | 38 | 37 | 97.3684 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.0002 | 96.8379 | 99.1907 | 64.6712 | 1960 | 64 | 1961 | 16 | 0 | 0.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | * | 99.2530 | 99.3156 | 99.1905 | 74.7864 | 16543 | 114 | 16541 | 135 | 27 | 20.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.6018 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.7266 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 87.2483 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.9899 | 98.7903 | 99.1903 | 88.6018 | 245 | 3 | 245 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | * | 99.2981 | 99.4065 | 99.1899 | 76.2408 | 19595 | 117 | 19591 | 160 | 20 | 12.5000 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | hetalt | 85.1313 | 74.5631 | 99.1899 | 56.3007 | 18775 | 6405 | 18000 | 147 | 122 | 82.9932 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.5482 | 99.9091 | 99.1899 | 44.8772 | 2199 | 2 | 2204 | 18 | 12 | 66.6667 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.4553 | 99.7222 | 99.1897 | 69.2866 | 1436 | 4 | 1469 | 12 | 1 | 8.3333 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4445 | 99.7009 | 99.1894 | 39.5064 | 7333 | 22 | 7342 | 60 | 10 | 16.6667 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.1544 | 97.1410 | 99.1891 | 68.9245 | 3058 | 90 | 3058 | 25 | 8 | 32.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1713 | 99.1535 | 99.1891 | 87.0415 | 2694 | 23 | 2691 | 22 | 15 | 68.1818 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.9969 | 94.8995 | 99.1890 | 42.3293 | 1228 | 66 | 1223 | 10 | 10 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m2_e0 | * | 98.7887 | 98.3918 | 99.1888 | 84.1125 | 1346 | 22 | 1345 | 11 | 2 | 18.1818 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4847 | 99.7826 | 99.1887 | 63.5467 | 35342 | 77 | 35331 | 289 | 22 | 7.6125 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | het | 85.9506 | 75.8301 | 99.1886 | 83.8404 | 23477 | 7483 | 23472 | 192 | 12 | 6.2500 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.6617 | 94.2604 | 99.1884 | 62.0692 | 5009 | 305 | 5011 | 41 | 34 | 82.9268 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m2_e0 | het | 98.1096 | 97.0541 | 99.1883 | 80.7169 | 1219 | 37 | 1222 | 10 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | homalt | 97.1883 | 95.2678 | 99.1879 | 78.6252 | 3664 | 182 | 3664 | 30 | 6 | 20.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.6137 | 98.0460 | 99.1879 | 86.1881 | 853 | 17 | 855 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D6_15 | map_l125_m2_e0 | * | 97.9920 | 96.8254 | 99.1870 | 89.2576 | 122 | 4 | 122 | 1 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9597 | 91.0781 | 99.1870 | 75.5952 | 245 | 24 | 244 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | hetalt | 94.8678 | 90.9091 | 99.1870 | 87.3846 | 120 | 12 | 122 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m1_e0 | homalt | 69.5157 | 53.5088 | 99.1870 | 82.9167 | 122 | 106 | 122 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.7854 | 98.3871 | 99.1870 | 88.4507 | 244 | 4 | 244 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 72.3100 | 56.8934 | 99.1870 | 55.0110 | 619 | 469 | 610 | 5 | 4 | 80.0000 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7854 | 98.3871 | 99.1870 | 71.7404 | 976 | 16 | 976 | 8 | 2 | 25.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.5376 | 99.8908 | 99.1870 | 59.6192 | 1829 | 2 | 1830 | 15 | 1 | 6.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.7573 | 90.7063 | 99.1870 | 77.2011 | 244 | 25 | 244 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e1 | hetalt | 94.8678 | 90.9091 | 99.1870 | 86.1953 | 120 | 12 | 122 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | segdup | hetalt | 95.6238 | 92.3077 | 99.1870 | 94.8211 | 120 | 10 | 122 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | het | 91.3236 | 84.6154 | 99.1870 | 88.4507 | 121 | 22 | 122 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.3081 | 99.4295 | 99.1870 | 83.8625 | 1220 | 7 | 1220 | 10 | 6 | 60.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 83.3739 | 71.9097 | 99.1866 | 76.8457 | 4270 | 1668 | 4268 | 35 | 33 | 94.2857 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.6745 | 96.2080 | 99.1864 | 53.3595 | 7104 | 280 | 7071 | 58 | 53 | 91.3793 | |
| raldana-dualsentieon | INDEL | * | * | homalt | 99.5287 | 99.8738 | 99.1860 | 57.6626 | 125014 | 158 | 125023 | 1026 | 1009 | 98.3431 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 82.2765 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| ckim-gatk | INDEL | * | map_l100_m1_e0 | homalt | 99.1850 | 99.1850 | 99.1850 | 84.2531 | 1217 | 10 | 1217 | 10 | 6 | 60.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4696 | 95.8126 | 99.1849 | 62.9471 | 2311 | 101 | 2312 | 19 | 14 | 73.6842 | |
| ckim-vqsr | INDEL | I1_5 | map_siren | * | 98.0317 | 96.9052 | 99.1848 | 83.6671 | 2912 | 93 | 2920 | 24 | 8 | 33.3333 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5000 | 95.8716 | 99.1848 | 78.2549 | 418 | 18 | 1095 | 9 | 5 | 55.5556 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3133 | 95.5112 | 99.1848 | 77.7374 | 383 | 18 | 365 | 3 | 3 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8218 | 96.4958 | 99.1848 | 75.0551 | 1487 | 54 | 1460 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3744 | 99.5648 | 99.1847 | 37.2000 | 3889 | 17 | 3893 | 32 | 7 | 21.8750 | |