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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52351-52400 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | func_cds | het | 93.3333 | 87.5000 | 100.0000 | 61.1111 | 7 | 1 | 7 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.2963 | 92.8571 | 100.0000 | 61.1111 | 26 | 2 | 28 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | map_l125_m1_e0 | hetalt | 96.5517 | 93.3333 | 100.0000 | 61.1111 | 28 | 2 | 28 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | ti | map_l100_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 61.1111 | 14 | 0 | 14 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D16_PLUS | HG002compoundhet | homalt | 53.3333 | 50.0000 | 57.1429 | 61.1111 | 4 | 4 | 4 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | homalt | 94.0659 | 94.8751 | 93.2704 | 61.1057 | 1481 | 80 | 1483 | 107 | 75 | 70.0935 | |
| egarrison-hhga | SNP | ti | map_l100_m0_e0 | homalt | 99.8003 | 99.6656 | 99.9355 | 61.1047 | 7748 | 26 | 7748 | 5 | 5 | 100.0000 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3899 | 98.2619 | 98.5182 | 61.1046 | 6897 | 122 | 6848 | 103 | 31 | 30.0971 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6205 | 96.5909 | 98.6722 | 61.1039 | 1190 | 42 | 1189 | 16 | 15 | 93.7500 | |
| asubramanian-gatk | INDEL | D1_5 | * | * | 99.2637 | 98.9281 | 99.6016 | 61.0980 | 145172 | 1573 | 145253 | 581 | 383 | 65.9208 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 18.9971 | 10.7113 | 83.8926 | 61.0966 | 128 | 1067 | 125 | 24 | 18 | 75.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.7420 | 99.5423 | 99.9426 | 61.0950 | 1740 | 8 | 1740 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5384 | 98.0960 | 98.9848 | 61.0949 | 30810 | 598 | 30810 | 316 | 292 | 92.4051 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5384 | 98.0960 | 98.9848 | 61.0949 | 30810 | 598 | 30810 | 316 | 292 | 92.4051 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1802 | 96.7672 | 99.6350 | 61.0934 | 449 | 15 | 1092 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | HG002complexvar | * | 90.8863 | 84.3874 | 98.4697 | 61.0933 | 64926 | 12012 | 64799 | 1007 | 684 | 67.9245 | |
| asubramanian-gatk | INDEL | * | func_cds | het | 98.5959 | 98.1308 | 99.0654 | 61.0909 | 210 | 4 | 212 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m0_e0 | het | 98.0426 | 96.3815 | 99.7620 | 61.0832 | 7964 | 299 | 7964 | 19 | 3 | 15.7895 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 87.8840 | 90.4959 | 85.4187 | 61.0813 | 876 | 92 | 867 | 148 | 71 | 47.9730 | |
| hfeng-pmm3 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9108 | 99.8613 | 99.9603 | 61.0721 | 10083 | 14 | 10083 | 4 | 4 | 100.0000 | |
| ghariani-varprowl | INDEL | * | func_cds | * | 91.6388 | 92.3596 | 90.9292 | 61.0680 | 411 | 34 | 411 | 41 | 30 | 73.1707 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1381 | 98.5714 | 99.7113 | 61.0570 | 1035 | 15 | 1036 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.9873 | 91.5781 | 96.5267 | 61.0569 | 1207 | 111 | 1195 | 43 | 42 | 97.6744 | |
| ckim-vqsr | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5116 | 99.0847 | 99.9423 | 61.0562 | 1732 | 16 | 1732 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | * | hetalt | 96.7748 | 94.2997 | 99.3834 | 61.0557 | 9661 | 584 | 9671 | 60 | 59 | 98.3333 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.7656 | 99.2084 | 88.8889 | 61.0497 | 376 | 3 | 376 | 47 | 46 | 97.8723 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4598 | 98.9813 | 99.9429 | 61.0494 | 1749 | 18 | 1751 | 1 | 1 | 100.0000 | |
| jli-custom | SNP | * | map_l100_m1_e0 | * | 99.4716 | 99.3149 | 99.6287 | 61.0483 | 71907 | 496 | 71904 | 268 | 79 | 29.4776 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7403 | 96.1234 | 99.4126 | 61.0480 | 5108 | 206 | 5077 | 30 | 17 | 56.6667 | |
| ciseli-custom | INDEL | I1_5 | * | het | 91.4560 | 94.1106 | 88.9472 | 61.0454 | 74385 | 4655 | 74801 | 9295 | 7503 | 80.7208 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | * | 92.3506 | 90.1368 | 94.6759 | 61.0439 | 27005 | 2955 | 26887 | 1512 | 1502 | 99.3386 | |
| ckim-dragen | SNP | * | map_l125_m1_e0 | homalt | 99.5672 | 99.3256 | 99.8098 | 61.0436 | 16791 | 114 | 16796 | 32 | 29 | 90.6250 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 49.9128 | 37.3964 | 75.0227 | 61.0403 | 902 | 1510 | 826 | 275 | 49 | 17.8182 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6637 | 96.7532 | 98.5915 | 61.0394 | 1192 | 40 | 1190 | 17 | 16 | 94.1176 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.5472 | 80.0000 | 96.6667 | 61.0390 | 28 | 7 | 29 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 76.0563 | 65.8537 | 90.0000 | 61.0390 | 27 | 14 | 27 | 3 | 3 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l150_m2_e0 | homalt | 60.9384 | 52.0130 | 73.5614 | 61.0344 | 6085 | 5614 | 6085 | 2187 | 2050 | 93.7357 | |
| dgrover-gatk | INDEL | I1_5 | * | het | 99.6919 | 99.6799 | 99.7038 | 61.0342 | 78788 | 253 | 78770 | 234 | 135 | 57.6923 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e0 | * | 98.9542 | 98.1260 | 99.7965 | 61.0321 | 16180 | 309 | 16180 | 33 | 5 | 15.1515 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | homalt | 99.3957 | 98.8991 | 99.8972 | 61.0320 | 27220 | 303 | 27220 | 28 | 22 | 78.5714 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.7052 | 92.7928 | 96.6981 | 61.0294 | 206 | 16 | 205 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9657 | 98.3082 | 99.6321 | 61.0275 | 1627 | 28 | 1625 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.2716 | 99.5000 | 97.0732 | 61.0266 | 199 | 1 | 199 | 6 | 6 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0738 | 98.6992 | 95.5010 | 61.0266 | 15555 | 205 | 15517 | 731 | 705 | 96.4432 | |
| asubramanian-gatk | SNP | ti | map_siren | homalt | 75.4177 | 60.5364 | 100.0000 | 61.0156 | 22953 | 14963 | 22947 | 0 | 0 | ||
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.8560 | 99.8560 | 99.8559 | 61.0125 | 35368 | 51 | 35352 | 51 | 31 | 60.7843 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.1114 | 91.8919 | 98.5646 | 61.0075 | 204 | 18 | 206 | 3 | 1 | 33.3333 | |