PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69501-69550 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | homalt | 99.6648 | 99.4469 | 99.8837 | 59.2653 | 7731 | 43 | 7731 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.5087 | 99.8767 | 68.0791 | 7291 | 36 | 7291 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6909 | 99.5011 | 99.8814 | 70.4694 | 7578 | 38 | 7578 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | homalt | 99.6940 | 99.5060 | 99.8826 | 70.5038 | 7655 | 38 | 7655 | 9 | 7 | 77.7778 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.2904 | 94.1423 | 98.5390 | 34.0824 | 1125 | 70 | 1214 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1659 | 95.8604 | 98.5075 | 61.5311 | 1181 | 51 | 1188 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| anovak-vg | INDEL | D6_15 | map_l125_m0_e0 | * | 77.7114 | 74.4681 | 81.2500 | 92.1824 | 35 | 12 | 39 | 9 | 7 | 77.7778 | |
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | * | 97.6735 | 97.5654 | 97.7819 | 66.9248 | 1603 | 40 | 1587 | 36 | 28 | 77.7778 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3176 | 99.3243 | 99.3109 | 72.4414 | 1323 | 9 | 1297 | 9 | 7 | 77.7778 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 60.8696 | 77.7778 | 50.0000 | 52.2124 | 28 | 8 | 27 | 27 | 21 | 77.7778 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | homalt | 82.5658 | 70.7831 | 99.0546 | 79.9368 | 940 | 388 | 943 | 9 | 7 | 77.7778 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 81.8581 | 70.0143 | 98.5246 | 47.8186 | 488 | 209 | 601 | 9 | 7 | 77.7778 | |
| ckim-isaac | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5412 | 91.9336 | 99.4434 | 50.8361 | 1607 | 141 | 1608 | 9 | 7 | 77.7778 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.7251 | 83.8065 | 98.8889 | 77.1767 | 797 | 154 | 801 | 9 | 7 | 77.7778 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 79.6992 | 74.6479 | 85.4839 | 48.7603 | 53 | 18 | 53 | 9 | 7 | 77.7778 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7960 | 99.6973 | 99.8950 | 55.4424 | 17125 | 52 | 17126 | 18 | 14 | 77.7778 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.3653 | 22.6531 | 71.1538 | 64.7856 | 111 | 379 | 111 | 45 | 35 | 77.7778 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5702 | 98.7805 | 92.5620 | 88.2296 | 162 | 2 | 112 | 9 | 7 | 77.7778 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.6931 | 93.6813 | 99.9050 | 54.1997 | 9459 | 638 | 9468 | 9 | 7 | 77.7778 | |
| ckim-vqsr | INDEL | D16_PLUS | HG002complexvar | * | 97.6423 | 97.5046 | 97.7805 | 66.9855 | 1602 | 41 | 1586 | 36 | 28 | 77.7778 | |
| dgrover-gatk | SNP | ti | HG002compoundhet | * | 99.8369 | 99.8284 | 99.8455 | 35.6925 | 17448 | 30 | 17446 | 27 | 21 | 77.7778 | |
| hfeng-pmm2 | INDEL | * | HG002complexvar | hetalt | 97.5479 | 95.4312 | 99.7606 | 69.1784 | 3530 | 169 | 3750 | 9 | 7 | 77.7778 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | homalt | 99.8773 | 99.8396 | 99.9150 | 58.5881 | 10581 | 17 | 10585 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | homalt | 98.7968 | 97.8179 | 99.7955 | 67.3853 | 4393 | 98 | 4393 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | homalt | 99.0574 | 98.2530 | 99.8751 | 68.9978 | 7199 | 128 | 7199 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.0801 | 98.2931 | 99.8799 | 71.3088 | 7486 | 130 | 7486 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | homalt | 99.0828 | 98.2972 | 99.8811 | 71.3252 | 7562 | 131 | 7562 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | tv | HG002complexvar | homalt | 99.9385 | 99.8959 | 99.9811 | 22.6324 | 95012 | 99 | 94994 | 18 | 14 | 77.7778 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5426 | 98.1027 | 98.9865 | 64.0849 | 1758 | 34 | 1758 | 18 | 14 | 77.7778 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3988 | 87.3134 | 98.1132 | 62.3817 | 468 | 68 | 468 | 9 | 7 | 77.7778 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.3621 | 99.0244 | 95.7547 | 90.6402 | 203 | 2 | 203 | 9 | 7 | 77.7778 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.3621 | 99.0244 | 95.7547 | 90.6402 | 203 | 2 | 203 | 9 | 7 | 77.7778 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.9595 | 93.9583 | 98.0477 | 81.2678 | 451 | 29 | 452 | 9 | 7 | 77.7778 | |
| hfeng-pmm1 | SNP | ti | * | homalt | 99.9926 | 99.9908 | 99.9944 | 16.6970 | 802964 | 74 | 802957 | 45 | 35 | 77.7778 | |
| hfeng-pmm3 | INDEL | * | HG002complexvar | hetalt | 97.4347 | 95.2149 | 99.7604 | 68.3328 | 3522 | 177 | 3748 | 9 | 7 | 77.7778 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.3933 | 76.1905 | 97.1246 | 62.8266 | 304 | 95 | 304 | 9 | 7 | 77.7778 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 75.6646 | 71.4286 | 80.4348 | 98.6240 | 30 | 12 | 37 | 9 | 7 | 77.7778 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 43.7500 | 0 | 1 | 0 | 9 | 7 | 77.7778 | ||
| gduggal-bwafb | INDEL | * | func_cds | het | 94.3524 | 92.9907 | 95.7547 | 43.4667 | 199 | 15 | 203 | 9 | 7 | 77.7778 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.6866 | 97.5389 | 99.8617 | 32.7198 | 6579 | 166 | 6497 | 9 | 7 | 77.7778 | |
| gduggal-bwavard | SNP | ti | map_l125_m0_e0 | homalt | 98.3384 | 96.9272 | 99.7913 | 70.3716 | 4353 | 138 | 4304 | 9 | 7 | 77.7778 | |
| gduggal-snapfb | INDEL | * | map_siren | hetalt | 66.5492 | 57.0850 | 79.7753 | 93.0196 | 141 | 106 | 71 | 18 | 14 | 77.7778 | |
| gduggal-bwavard | INDEL | D1_5 | func_cds | * | 94.6708 | 94.9686 | 94.3750 | 37.7432 | 151 | 8 | 151 | 9 | 7 | 77.7778 | |
| gduggal-bwavard | INDEL | D1_5 | func_cds | het | 94.9721 | 100.0000 | 90.4255 | 45.3488 | 85 | 0 | 85 | 9 | 7 | 77.7778 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 60.8979 | 43.9836 | 98.9498 | 39.8596 | 859 | 1094 | 848 | 9 | 7 | 77.7778 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 17.5627 | 9.9796 | 73.1343 | 69.4064 | 49 | 442 | 49 | 18 | 14 | 77.7778 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 51.3821 | 35.1740 | 95.2929 | 41.6005 | 930 | 1714 | 911 | 45 | 35 | 77.7778 | |
| gduggal-snapplat | SNP | tv | segdup | homalt | 99.3958 | 99.0735 | 99.7201 | 90.1395 | 3208 | 30 | 3207 | 9 | 7 | 77.7778 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e0 | homalt | 97.9110 | 96.1094 | 99.7816 | 68.5446 | 16699 | 676 | 16446 | 36 | 28 | 77.7778 | |