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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24601-24650 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 92.8220 | 96.7435 | 89.2061 | 36.1513 | 7011 | 236 | 7000 | 847 | 807 | 95.2774 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e1 | het | 80.5690 | 96.7430 | 69.0285 | 92.1093 | 1901 | 64 | 1890 | 848 | 29 | 3.4198 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9013 | 96.7415 | 99.0893 | 45.1717 | 12113 | 408 | 33076 | 304 | 254 | 83.5526 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | het | 93.2304 | 96.7393 | 89.9672 | 77.3983 | 43880 | 1479 | 43312 | 4830 | 369 | 7.6398 | |
| bgallagher-sentieon | INDEL | D6_15 | segdup | het | 96.2162 | 96.7391 | 95.6989 | 95.1461 | 89 | 3 | 89 | 4 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7391 | 96.7391 | 96.7391 | 70.4180 | 89 | 3 | 89 | 3 | 3 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | * | 95.1872 | 96.7391 | 93.6842 | 95.1568 | 178 | 6 | 178 | 12 | 1 | 8.3333 | |
| egarrison-hhga | INDEL | D1_5 | map_l250_m2_e0 | * | 97.2678 | 96.7391 | 97.8022 | 95.3842 | 178 | 6 | 178 | 4 | 2 | 50.0000 | |
| ckim-vqsr | INDEL | D6_15 | segdup | het | 96.7391 | 96.7391 | 96.7391 | 96.5939 | 89 | 3 | 89 | 3 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | segdup | het | 95.6989 | 96.7391 | 94.6809 | 94.0881 | 89 | 3 | 89 | 5 | 5 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | segdup | het | 94.7959 | 96.7391 | 92.9293 | 94.1351 | 89 | 3 | 92 | 7 | 6 | 85.7143 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.8197 | 96.7391 | 98.9247 | 90.8824 | 267 | 9 | 276 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | D6_15 | segdup | het | 98.3425 | 96.7391 | 100.0000 | 93.1979 | 89 | 3 | 144 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | map_l250_m2_e0 | * | 95.4265 | 96.7391 | 94.1489 | 95.7629 | 178 | 6 | 177 | 11 | 2 | 18.1818 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.2678 | 96.7391 | 97.8022 | 91.0404 | 267 | 9 | 267 | 6 | 4 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D6_15 | segdup | het | 97.1910 | 96.7391 | 97.6471 | 92.1803 | 89 | 3 | 83 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | het | 95.1872 | 96.7391 | 93.6842 | 96.4932 | 89 | 3 | 89 | 6 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m1_e0 | het | 89.3113 | 96.7385 | 82.9433 | 83.9813 | 18686 | 630 | 18464 | 3797 | 256 | 6.7422 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.5608 | 96.7376 | 96.3847 | 75.3388 | 1364 | 46 | 1333 | 50 | 40 | 80.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.5778 | 96.7372 | 90.6183 | 55.9107 | 1601 | 54 | 1700 | 176 | 163 | 92.6136 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.1212 | 96.7368 | 99.5458 | 35.0221 | 2668 | 90 | 2630 | 12 | 9 | 75.0000 | |
| cchapple-custom | SNP | * | map_l150_m1_e0 | * | 96.5908 | 96.7363 | 96.4458 | 77.1687 | 29610 | 999 | 29605 | 1091 | 240 | 21.9982 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.9617 | 96.7357 | 97.1888 | 78.6888 | 1215 | 41 | 1210 | 35 | 17 | 48.5714 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.7089 | 96.7345 | 94.7048 | 54.9593 | 27046 | 913 | 27829 | 1556 | 769 | 49.4216 | |
| hfeng-pmm3 | SNP | ti | HG002compoundhet | * | 98.2879 | 96.7330 | 99.8937 | 34.5867 | 16907 | 571 | 16909 | 18 | 8 | 44.4444 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e0 | * | 97.6365 | 96.7330 | 98.5570 | 88.7837 | 1362 | 46 | 1366 | 20 | 4 | 20.0000 | |
| ckim-dragen | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7279 | 96.7327 | 96.7231 | 79.7872 | 3908 | 132 | 3601 | 122 | 95 | 77.8689 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6571 | 96.7320 | 98.6000 | 85.4100 | 1480 | 50 | 1479 | 21 | 15 | 71.4286 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6571 | 96.7320 | 98.6000 | 85.4100 | 1480 | 50 | 1479 | 21 | 15 | 71.4286 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 53.5870 | 96.7318 | 37.0581 | 53.6813 | 3167 | 107 | 3187 | 5413 | 5386 | 99.5012 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 83.8511 | 96.7311 | 73.9980 | 86.2278 | 6658 | 225 | 6739 | 2368 | 15 | 0.6334 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.7603 | 96.7298 | 96.7909 | 69.6486 | 3934 | 133 | 3921 | 130 | 111 | 85.3846 | |
| jpowers-varprowl | SNP | * | map_l100_m0_e0 | * | 97.2063 | 96.7297 | 97.6876 | 74.3551 | 31767 | 1074 | 31768 | 752 | 236 | 31.3830 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | het | 80.3742 | 96.7290 | 68.7500 | 68.2119 | 828 | 28 | 825 | 375 | 371 | 98.9333 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.5413 | 96.7290 | 88.7011 | 66.3212 | 3519 | 119 | 3517 | 448 | 445 | 99.3304 | |
| ckim-isaac | INDEL | * | func_cds | het | 97.8678 | 96.7290 | 99.0338 | 42.5000 | 207 | 7 | 205 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8591 | 96.7290 | 96.9897 | 63.1840 | 3105 | 105 | 3093 | 96 | 93 | 96.8750 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.3145 | 96.7288 | 99.9531 | 38.9223 | 2129 | 72 | 2130 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 96.7286 | 0.0000 | 0.0000 | 1094 | 37 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | HG002complexvar | * | 97.5342 | 96.7281 | 98.3538 | 26.8142 | 238101 | 8054 | 238450 | 3991 | 673 | 16.8629 | |
| gduggal-snapfb | SNP | tv | map_l125_m0_e0 | het | 94.9693 | 96.7280 | 93.2734 | 75.1430 | 4257 | 144 | 4257 | 307 | 123 | 40.0651 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.5901 | 96.7267 | 96.4539 | 49.3016 | 3546 | 120 | 3536 | 130 | 124 | 95.3846 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 88.9790 | 96.7259 | 82.3810 | 40.2277 | 2068 | 70 | 2076 | 444 | 4 | 0.9009 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1341 | 96.7259 | 99.5838 | 73.0521 | 15067 | 510 | 15075 | 63 | 45 | 71.4286 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1703 | 96.7255 | 99.6588 | 90.0637 | 2629 | 89 | 2629 | 9 | 5 | 55.5556 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.7997 | 96.7251 | 66.4796 | 66.7555 | 827 | 28 | 829 | 418 | 3 | 0.7177 | |
| rpoplin-dv42 | INDEL | * | map_l150_m1_e0 | het | 97.5275 | 96.7251 | 98.3432 | 88.8109 | 827 | 28 | 831 | 14 | 5 | 35.7143 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.3347 | 96.7239 | 100.0000 | 43.1050 | 620 | 21 | 623 | 0 | 0 | ||