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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15801-15850 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | * | map_l150_m2_e1 | * | 93.6106 | 92.5643 | 94.6809 | 89.9106 | 1332 | 107 | 1335 | 75 | 21 | 28.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 29.7872 | 24.6479 | 37.6344 | 33.0935 | 35 | 107 | 35 | 58 | 57 | 98.2759 | |
| dgrover-gatk | SNP | ti | HG002complexvar | homalt | 99.9661 | 99.9447 | 99.9876 | 18.3249 | 193356 | 107 | 193346 | 24 | 24 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e0 | het | 99.0461 | 99.1693 | 98.9232 | 81.0415 | 12774 | 107 | 12770 | 139 | 30 | 21.5827 | |
| dgrover-gatk | SNP | ti | map_l150_m2_e1 | het | 99.0483 | 99.1779 | 98.9191 | 81.1057 | 12908 | 107 | 12904 | 141 | 30 | 21.2766 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.2348 | 96.1840 | 92.3630 | 49.0134 | 2697 | 107 | 2697 | 223 | 68 | 30.4933 | |
| egarrison-hhga | SNP | tv | map_l100_m0_e0 | het | 99.0740 | 98.5184 | 99.6359 | 68.9508 | 7115 | 107 | 7115 | 26 | 10 | 38.4615 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 88.1005 | 80.0000 | 98.0263 | 81.2243 | 428 | 107 | 1341 | 27 | 27 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 70.6147 | 60.2230 | 85.3403 | 77.0433 | 162 | 107 | 163 | 28 | 7 | 25.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m2_e1 | * | 69.0673 | 61.0909 | 79.4393 | 85.8746 | 168 | 107 | 170 | 44 | 27 | 61.3636 | |
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | het | 98.5131 | 99.1551 | 97.8793 | 78.7667 | 12557 | 107 | 12554 | 272 | 40 | 14.7059 | |
| bgallagher-sentieon | SNP | * | map_l150_m0_e0 | * | 98.7085 | 99.1107 | 98.3096 | 80.7877 | 11925 | 107 | 11922 | 205 | 30 | 14.6341 | |
| astatham-gatk | INDEL | D16_PLUS | HG002compoundhet | * | 95.6540 | 95.4293 | 95.8798 | 35.4392 | 2234 | 107 | 2234 | 96 | 94 | 97.9167 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8289 | 94.4588 | 99.3210 | 38.8312 | 1824 | 107 | 2048 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | * | map_l125_m2_e0 | * | 96.5138 | 95.1275 | 97.9410 | 89.1008 | 2089 | 107 | 2093 | 44 | 9 | 20.4545 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6662 | 99.3697 | 99.9644 | 66.5145 | 16868 | 107 | 16868 | 6 | 6 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6662 | 99.3697 | 99.9644 | 66.5145 | 16868 | 107 | 16868 | 6 | 6 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.3861 | 91.2510 | 99.9136 | 55.5641 | 1116 | 107 | 1157 | 1 | 1 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l100_m1_e0 | het | 94.3447 | 99.3060 | 89.8556 | 80.1334 | 15310 | 107 | 15306 | 1728 | 90 | 5.2083 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | het | 94.4020 | 99.3218 | 89.9466 | 81.2769 | 15670 | 107 | 15666 | 1751 | 90 | 5.1399 | |
| jlack-gatk | SNP | tv | map_l100_m2_e1 | het | 94.4530 | 99.3286 | 90.0336 | 81.3037 | 15831 | 107 | 15827 | 1752 | 90 | 5.1370 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5928 | 93.5112 | 99.8845 | 36.3837 | 1542 | 107 | 1729 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | het | 89.4149 | 87.4118 | 91.5119 | 86.7066 | 743 | 107 | 690 | 64 | 62 | 96.8750 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.2991 | 91.8816 | 96.8472 | 60.7800 | 1211 | 107 | 1198 | 39 | 38 | 97.4359 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.1238 | 96.5350 | 99.7657 | 66.1570 | 2981 | 107 | 2981 | 7 | 4 | 57.1429 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2384 | 97.7540 | 98.7277 | 67.1771 | 4657 | 107 | 4656 | 60 | 21 | 35.0000 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3281 | 98.8960 | 97.7666 | 73.6710 | 9585 | 107 | 9718 | 222 | 62 | 27.9279 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 95.3716 | 91.7119 | 99.3355 | 36.2626 | 1184 | 107 | 1196 | 8 | 8 | 100.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.2799 | 97.7540 | 96.8105 | 66.5390 | 4657 | 107 | 4735 | 156 | 5 | 3.2051 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e1 | * | 56.3873 | 42.7027 | 82.9787 | 91.9105 | 79 | 106 | 78 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | I16_PLUS | * | homalt | 93.7946 | 93.2095 | 94.3871 | 67.1262 | 1455 | 106 | 1463 | 87 | 84 | 96.5517 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.3677 | 72.6804 | 89.8734 | 76.7647 | 282 | 106 | 284 | 32 | 30 | 93.7500 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5046 | 99.0824 | 99.9304 | 64.6956 | 11446 | 106 | 11491 | 8 | 6 | 75.0000 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e0 | homalt | 81.2948 | 68.9150 | 99.0964 | 84.0614 | 235 | 106 | 329 | 3 | 2 | 66.6667 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e1 | homalt | 81.4279 | 69.0962 | 99.1176 | 84.0450 | 237 | 106 | 337 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | INDEL | I6_15 | map_siren | * | 68.6489 | 65.2459 | 72.4265 | 84.2319 | 199 | 106 | 197 | 75 | 64 | 85.3333 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e0 | * | 93.6073 | 92.4716 | 94.7712 | 89.9313 | 1302 | 106 | 1305 | 72 | 21 | 29.1667 | |
| gduggal-snapfb | INDEL | * | map_siren | hetalt | 66.5492 | 57.0850 | 79.7753 | 93.0196 | 141 | 106 | 71 | 18 | 14 | 77.7778 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m0_e0 | het | 64.2140 | 47.5248 | 98.9691 | 97.6861 | 96 | 106 | 96 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.6326 | 78.2787 | 89.7727 | 73.4807 | 382 | 106 | 474 | 54 | 50 | 92.5926 | |
| jpowers-varprowl | SNP | ti | map_l125_m0_e0 | homalt | 98.7168 | 97.6397 | 99.8179 | 72.4456 | 4385 | 106 | 4385 | 8 | 6 | 75.0000 | |
| jli-custom | SNP | ti | map_l250_m1_e0 | het | 97.6625 | 96.4286 | 98.9284 | 86.8086 | 2862 | 106 | 2862 | 31 | 16 | 51.6129 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | hetalt | 95.3064 | 91.3328 | 99.6416 | 58.0293 | 1117 | 106 | 1112 | 4 | 4 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4435 | 95.6053 | 99.3537 | 62.1556 | 2306 | 106 | 2306 | 15 | 13 | 86.6667 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4541 | 99.1074 | 99.8032 | 43.2339 | 11769 | 106 | 11664 | 23 | 18 | 78.2609 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.4701 | 91.3328 | 100.0000 | 52.5604 | 1117 | 106 | 1158 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.3092 | 94.0011 | 98.7334 | 63.5924 | 1661 | 106 | 1637 | 21 | 7 | 33.3333 | |
| gduggal-snapvard | SNP | tv | map_l125_m0_e0 | homalt | 97.4654 | 95.2274 | 99.8111 | 72.0544 | 2115 | 106 | 2114 | 4 | 3 | 75.0000 | |