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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30401-30450 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | I1_5 | map_l125_m1_e0 | * | 96.2822 | 96.8675 | 95.7041 | 87.0978 | 804 | 26 | 802 | 36 | 7 | 19.4444 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e0 | * | 96.3387 | 96.8495 | 95.8333 | 88.2337 | 830 | 27 | 828 | 36 | 7 | 19.4444 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e1 | * | 96.3932 | 96.8966 | 95.8951 | 88.3455 | 843 | 27 | 841 | 36 | 7 | 19.4444 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 25.0000 | 84.7619 | 0 | 0 | 12 | 36 | 7 | 19.4444 | |
| dgrover-gatk | SNP | * | map_l100_m0_e0 | het | 99.0469 | 99.2549 | 98.8398 | 75.0691 | 21047 | 158 | 21043 | 247 | 48 | 19.4332 | |
| gduggal-snapfb | INDEL | D1_5 | map_siren | * | 96.5488 | 96.9963 | 96.1054 | 82.0770 | 3423 | 106 | 3430 | 139 | 27 | 19.4245 | |
| dgrover-gatk | SNP | * | map_l125_m0_e0 | het | 98.7051 | 99.0287 | 98.3836 | 80.4812 | 12541 | 123 | 12538 | 206 | 40 | 19.4175 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | het | 96.9127 | 98.7732 | 95.1210 | 82.9549 | 19886 | 247 | 19886 | 1020 | 198 | 19.4118 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9908 | 72.0050 | 92.5390 | 89.7242 | 571 | 222 | 831 | 67 | 13 | 19.4030 | |
| ciseli-custom | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 24.2938 | 93.8051 | 0 | 0 | 258 | 804 | 156 | 19.4030 | |
| hfeng-pmm2 | INDEL | * | map_l125_m0_e0 | * | 97.4196 | 98.2993 | 96.5556 | 89.6718 | 867 | 15 | 869 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 97.1552 | 96.0498 | 98.2863 | 84.7368 | 1775 | 73 | 1778 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 97.1748 | 96.0313 | 98.3458 | 85.2927 | 1839 | 76 | 1843 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 97.1296 | 95.9257 | 98.3641 | 85.3950 | 1860 | 79 | 1864 | 31 | 6 | 19.3548 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | het | 96.9234 | 98.7821 | 95.1334 | 83.0282 | 20115 | 248 | 20115 | 1029 | 199 | 19.3392 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2657 | 99.6737 | 96.8970 | 47.8485 | 2749 | 9 | 2748 | 88 | 17 | 19.3182 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | * | 85.3151 | 80.0413 | 91.3330 | 91.1809 | 1552 | 387 | 1802 | 171 | 33 | 19.2982 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3876 | 99.6809 | 99.0961 | 47.6724 | 6248 | 20 | 6249 | 57 | 11 | 19.2982 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | het | 95.1305 | 93.0201 | 97.3389 | 86.8492 | 2079 | 156 | 2085 | 57 | 11 | 19.2982 | |
| jpowers-varprowl | SNP | tv | HG002complexvar | het | 99.3313 | 98.8748 | 99.7919 | 23.6187 | 149035 | 1696 | 149155 | 311 | 60 | 19.2926 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e1 | het | 91.0832 | 98.8312 | 84.4617 | 91.0642 | 761 | 9 | 761 | 140 | 27 | 19.2857 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | het | 98.7623 | 98.2061 | 99.3248 | 58.2604 | 45383 | 829 | 45014 | 306 | 59 | 19.2810 | |
| cchapple-custom | SNP | * | map_siren | * | 98.2653 | 98.4743 | 98.0572 | 58.9696 | 143997 | 2231 | 143999 | 2853 | 550 | 19.2780 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 81.6840 | 71.9940 | 94.3881 | 86.6528 | 964 | 375 | 1396 | 83 | 16 | 19.2771 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | * | 97.1833 | 96.6423 | 97.7304 | 89.4395 | 3569 | 124 | 3574 | 83 | 16 | 19.2771 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e1 | * | 97.1482 | 96.5389 | 97.7652 | 89.4752 | 3626 | 130 | 3631 | 83 | 16 | 19.2771 | |
| ciseli-custom | SNP | ti | map_l250_m2_e1 | * | 70.8062 | 67.0213 | 75.0441 | 92.1332 | 3402 | 1674 | 3401 | 1131 | 218 | 19.2750 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m1_e0 | het | 90.8745 | 98.7603 | 84.1549 | 90.4911 | 717 | 9 | 717 | 135 | 26 | 19.2593 | |
| bgallagher-sentieon | SNP | ti | map_l125_m0_e0 | * | 98.9758 | 99.2086 | 98.7441 | 75.3623 | 12661 | 101 | 12659 | 161 | 31 | 19.2547 | |
| cchapple-custom | INDEL | * | map_l150_m1_e0 | * | 95.3104 | 96.2631 | 94.3764 | 89.0069 | 1288 | 50 | 1309 | 78 | 15 | 19.2308 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 11.3706 | 7.7670 | 21.2121 | 59.0062 | 16 | 190 | 14 | 52 | 10 | 19.2308 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2980 | 99.6507 | 98.9479 | 58.0370 | 17117 | 60 | 17116 | 182 | 35 | 19.2308 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 48.0000 | 100.0000 | 31.5789 | 90.0000 | 1 | 0 | 12 | 26 | 5 | 19.2308 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m1_e0 | het | 98.4476 | 97.1463 | 99.7841 | 64.1912 | 12017 | 353 | 12019 | 26 | 5 | 19.2308 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.3830 | 98.4436 | 98.3226 | 73.6125 | 1518 | 24 | 1524 | 26 | 5 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | * | 80.3204 | 67.1841 | 99.8422 | 64.2807 | 32894 | 16067 | 32898 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | * | 80.3859 | 67.2749 | 99.8441 | 64.2491 | 33291 | 16194 | 33295 | 52 | 10 | 19.2308 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6143 | 93.9646 | 99.4178 | 33.0736 | 4406 | 283 | 4440 | 26 | 5 | 19.2308 | |
| dgrover-gatk | SNP | * | map_l125_m1_e0 | het | 99.1524 | 99.3097 | 98.9956 | 76.1623 | 28196 | 196 | 28190 | 286 | 55 | 19.2308 | |
| hfeng-pmm3 | SNP | ti | HG002complexvar | het | 99.8511 | 99.7192 | 99.9834 | 16.8098 | 313882 | 884 | 313832 | 52 | 10 | 19.2308 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 76.1538 | 84.6154 | 69.2308 | 93.9943 | 121 | 22 | 117 | 52 | 10 | 19.2308 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m0_e0 | * | 50.0000 | 64.2857 | 40.9091 | 94.2181 | 18 | 10 | 18 | 26 | 5 | 19.2308 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.3224 | 95.8089 | 92.8813 | 84.3204 | 6378 | 279 | 6315 | 484 | 93 | 19.2149 | |
| dgrover-gatk | SNP | tv | map_l100_m1_e0 | * | 99.4329 | 99.4817 | 99.3842 | 68.2243 | 24374 | 127 | 24370 | 151 | 29 | 19.2053 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2467 | 99.6334 | 98.8630 | 62.3274 | 10871 | 40 | 10869 | 125 | 24 | 19.2000 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e0 | * | 81.2147 | 68.6414 | 99.4272 | 84.5184 | 17183 | 7850 | 17184 | 99 | 19 | 19.1919 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e0 | het | 85.2808 | 74.8051 | 99.1683 | 86.8061 | 11802 | 3975 | 11804 | 99 | 19 | 19.1919 | |
| ciseli-custom | SNP | * | map_l250_m1_e0 | * | 68.5054 | 64.2204 | 73.4031 | 91.7933 | 4638 | 2584 | 4631 | 1678 | 322 | 19.1895 | |
| dgrover-gatk | SNP | * | map_l125_m2_e0 | het | 99.1639 | 99.3212 | 99.0070 | 77.2838 | 29119 | 199 | 29113 | 292 | 56 | 19.1781 | |