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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10701-10750 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.0429 | 88.9798 | 97.4948 | 82.9386 | 4239 | 525 | 4242 | 109 | 14 | 12.8440 | |
| gduggal-bwaplat | SNP | ti | map_l125_m1_e0 | * | 75.1104 | 60.3648 | 99.3885 | 86.1772 | 17708 | 11627 | 17715 | 109 | 33 | 30.2752 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 52.3244 | 38.4502 | 81.8636 | 44.8624 | 1047 | 1676 | 492 | 109 | 68 | 62.3853 | |
| jli-custom | SNP | ti | map_l125_m2_e0 | het | 99.1286 | 98.8398 | 99.4191 | 70.5575 | 18657 | 219 | 18655 | 109 | 33 | 30.2752 | |
| jli-custom | SNP | ti | map_l125_m2_e1 | het | 99.1383 | 98.8526 | 99.4256 | 70.6228 | 18868 | 219 | 18866 | 109 | 33 | 30.2752 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | het | 99.2133 | 99.1190 | 99.3078 | 65.8320 | 15638 | 139 | 15637 | 109 | 24 | 22.0183 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2262 | 95.8879 | 96.5669 | 62.8612 | 3078 | 132 | 3066 | 109 | 106 | 97.2477 | |
| ltrigg-rtg1 | INDEL | * | * | hetalt | 95.1862 | 91.1955 | 99.5422 | 68.0582 | 23015 | 2222 | 23702 | 109 | 107 | 98.1651 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e1 | het | 92.8294 | 93.3239 | 92.3401 | 89.9662 | 1314 | 94 | 1314 | 109 | 76 | 69.7248 | |
| hfeng-pmm2 | SNP | tv | map_l150_m2_e0 | het | 98.7968 | 99.0899 | 98.5054 | 79.5966 | 7186 | 66 | 7184 | 109 | 10 | 9.1743 | |
| hfeng-pmm2 | SNP | tv | map_l150_m2_e1 | het | 98.8125 | 99.1018 | 98.5248 | 79.6036 | 7282 | 66 | 7280 | 109 | 10 | 9.1743 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8719 | 99.3172 | 98.4305 | 81.7659 | 6836 | 47 | 6836 | 109 | 22 | 20.1835 | |
| gduggal-snapvard | INDEL | D1_5 | map_l250_m2_e0 | het | 74.0028 | 99.1736 | 59.0226 | 95.4854 | 120 | 1 | 157 | 109 | 17 | 15.5963 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.5877 | 98.1945 | 98.9841 | 59.2905 | 10714 | 197 | 10620 | 109 | 34 | 31.1927 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m2_e0 | het | 89.7345 | 98.6381 | 82.3052 | 92.4436 | 507 | 7 | 507 | 109 | 20 | 18.3486 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.4411 | 88.2459 | 99.2862 | 62.0370 | 15158 | 2019 | 15162 | 109 | 22 | 20.1835 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 22.0793 | 12.5407 | 92.2309 | 57.4591 | 1194 | 8327 | 1294 | 109 | 93 | 85.3211 | |
| gduggal-snapplat | INDEL | * | map_siren | homalt | 83.6919 | 74.7269 | 95.1011 | 85.8909 | 1984 | 671 | 2116 | 109 | 16 | 14.6789 | |
| ckim-vqsr | SNP | ti | map_l100_m0_e0 | * | 70.6665 | 54.9125 | 99.0964 | 86.5903 | 11955 | 9816 | 11954 | 109 | 1 | 0.9174 | |
| ckim-vqsr | SNP | ti | map_l100_m0_e0 | het | 80.8690 | 68.4116 | 98.8733 | 87.2610 | 9566 | 4417 | 9565 | 109 | 1 | 0.9174 | |
| dgrover-gatk | SNP | * | map_l250_m2_e0 | het | 98.1270 | 98.3442 | 97.9107 | 91.4879 | 5108 | 86 | 5108 | 109 | 25 | 22.9358 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| ckim-isaac | INDEL | D1_5 | * | homalt | 97.8426 | 95.9899 | 99.7683 | 50.1114 | 46964 | 1962 | 46933 | 109 | 36 | 33.0275 | |
| dgrover-gatk | INDEL | D16_PLUS | * | het | 97.8168 | 99.3036 | 96.3739 | 78.4222 | 3137 | 22 | 2897 | 109 | 66 | 60.5505 | |
| egarrison-hhga | SNP | * | map_l100_m1_e0 | * | 99.5435 | 99.2404 | 99.8485 | 62.8269 | 71853 | 550 | 71854 | 109 | 49 | 44.9541 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3239 | 99.0379 | 99.6116 | 52.2441 | 27690 | 269 | 27695 | 108 | 53 | 49.0741 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 75.7444 | 68.4857 | 84.7242 | 61.9892 | 502 | 231 | 599 | 108 | 100 | 92.5926 | |
| dgrover-gatk | SNP | tv | map_l100_m0_e0 | het | 98.8895 | 99.2661 | 98.5157 | 76.1747 | 7169 | 53 | 7168 | 108 | 20 | 18.5185 | |
| ckim-isaac | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2969 | 92.1490 | 96.5473 | 61.2007 | 2993 | 255 | 3020 | 108 | 27 | 25.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.4035 | 79.2818 | 58.6207 | 66.4093 | 287 | 75 | 153 | 108 | 102 | 94.4444 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.0662 | 84.6154 | 62.7586 | 92.3219 | 187 | 34 | 182 | 108 | 16 | 14.8148 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 76.2491 | 62.1404 | 98.6463 | 36.1300 | 8553 | 5211 | 7870 | 108 | 94 | 87.0370 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| qzeng-custom | SNP | ti | map_l250_m0_e0 | het | 67.5985 | 56.9593 | 83.1250 | 98.4261 | 532 | 402 | 532 | 108 | 85 | 78.7037 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | homalt | 94.3279 | 97.3482 | 91.4894 | 56.3918 | 1138 | 31 | 1161 | 108 | 53 | 49.0741 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | * | 77.6887 | 86.0465 | 70.8108 | 85.0746 | 222 | 36 | 262 | 108 | 10 | 9.2593 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 71.5746 | 78.1250 | 66.0377 | 64.7450 | 225 | 63 | 210 | 108 | 106 | 98.1481 | |
| ndellapenna-hhga | SNP | tv | HG002complexvar | homalt | 99.8464 | 99.8065 | 99.8864 | 22.8760 | 94927 | 184 | 94935 | 108 | 97 | 89.8148 | |
| ckim-dragen | SNP | tv | map_l150_m0_e0 | het | 97.0162 | 97.7840 | 96.2604 | 84.6993 | 2780 | 63 | 2780 | 108 | 8 | 7.4074 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4978 | 99.5967 | 99.3992 | 57.0007 | 17779 | 72 | 17867 | 108 | 27 | 25.0000 | |
| ciseli-custom | INDEL | D6_15 | map_l100_m2_e1 | * | 53.5373 | 50.9091 | 56.4516 | 88.7681 | 140 | 135 | 140 | 108 | 64 | 59.2593 | |
| ciseli-custom | INDEL | I1_5 | segdup | * | 88.5870 | 87.6298 | 89.5652 | 93.7669 | 928 | 131 | 927 | 108 | 88 | 81.4815 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | het | 96.3159 | 97.1831 | 95.4641 | 88.2397 | 2277 | 66 | 2273 | 108 | 10 | 9.2593 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.1540 | 77.3058 | 85.4054 | 60.1508 | 637 | 187 | 632 | 108 | 59 | 54.6296 | |
| anovak-vg | INDEL | I6_15 | map_siren | * | 52.3607 | 48.1967 | 57.3123 | 74.7000 | 147 | 158 | 145 | 108 | 71 | 65.7407 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.0806 | 99.4197 | 96.7771 | 68.3987 | 3255 | 19 | 3243 | 108 | 105 | 97.2222 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | het | 98.4386 | 98.9798 | 97.9033 | 83.1082 | 5045 | 52 | 5043 | 108 | 15 | 13.8889 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.2389 | 96.5856 | 93.9292 | 78.7201 | 1669 | 59 | 1671 | 108 | 103 | 95.3704 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | het | 97.0125 | 97.6891 | 96.3452 | 79.1579 | 3086 | 73 | 2847 | 108 | 74 | 68.5185 | |