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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60251-60300 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 2 | 0 | 2 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 1 | 0 | 1 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | map_l125_m2_e0 | hetalt | 80.0000 | 66.6667 | 100.0000 | 91.6667 | 2 | 1 | 2 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | map_l125_m2_e1 | hetalt | 80.0000 | 66.6667 | 100.0000 | 91.6667 | 2 | 1 | 2 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D6_15 | map_l150_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 8 | 0 | 8 | 0 | 0 | ||
| jli-custom | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 89.3838 | 82.3529 | 97.7273 | 91.6667 | 42 | 9 | 43 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | map_l125_m0_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 12 | 0 | 12 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 66.6667 | 50.0000 | 100.0000 | 91.6667 | 2 | 2 | 2 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | map_l100_m2_e0 | hetalt | 80.0000 | 66.6667 | 100.0000 | 91.6667 | 2 | 1 | 2 | 0 | 0 | ||
| jli-custom | INDEL | I16_PLUS | map_l125_m1_e0 | het | 88.8889 | 88.8889 | 88.8889 | 91.6667 | 8 | 1 | 8 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | map_l100_m0_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 1 | 0 | 1 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e0 | hetalt | 80.0000 | 66.6667 | 100.0000 | 91.6667 | 2 | 1 | 2 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I16_PLUS | map_l250_m0_e0 | * | 0.0000 | 0.0000 | 91.6667 | 0 | 0 | 0 | 1 | 0 | 0.0000 | ||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 91.6667 | 1 | 0 | 1 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | C16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 100.0000 | 91.6667 | 0 | 0 | 2 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e1 | hetalt | 91.3580 | 84.0909 | 100.0000 | 91.6667 | 111 | 21 | 113 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 0.0000 | 100.0000 | 91.6667 | 0 | 0 | 2 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C1_5 | HG002compoundhet | homalt | 0.0000 | 0.0000 | 100.0000 | 91.6667 | 0 | 0 | 7 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 0.0000 | 0.0000 | 100.0000 | 91.6667 | 0 | 0 | 1 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 75.0000 | 91.6667 | 0 | 0 | 3 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 100.0000 | 91.6667 | 0 | 0 | 1 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l125_m2_e1 | hetalt | 66.6667 | 50.0000 | 100.0000 | 91.6667 | 2 | 2 | 2 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l150_m1_e0 | * | 85.7143 | 80.0000 | 92.3077 | 91.6667 | 12 | 3 | 12 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l150_m2_e0 | * | 87.5000 | 82.3529 | 93.3333 | 91.6667 | 14 | 3 | 14 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l125_m0_e0 | het | 84.4311 | 73.4375 | 99.2958 | 91.6716 | 141 | 51 | 141 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 94.7867 | 97.0874 | 92.5926 | 91.6731 | 100 | 3 | 100 | 8 | 1 | 12.5000 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 94.9121 | 99.0909 | 91.0714 | 91.6749 | 763 | 7 | 765 | 75 | 4 | 5.3333 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m0_e0 | het | 87.9923 | 98.4375 | 79.5511 | 91.6753 | 189 | 3 | 319 | 82 | 26 | 31.7073 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e1 | * | 93.8347 | 95.2919 | 92.4214 | 91.6756 | 506 | 25 | 500 | 41 | 15 | 36.5854 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m0_e0 | het | 62.2449 | 63.5417 | 61.0000 | 91.6771 | 122 | 70 | 122 | 78 | 63 | 80.7692 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | het | 98.3512 | 98.5450 | 98.1582 | 91.6782 | 3251 | 48 | 3251 | 61 | 16 | 26.2295 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e1 | homalt | 71.4286 | 55.5556 | 100.0000 | 91.6796 | 430 | 344 | 430 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m2_e0 | het | 95.9024 | 95.6522 | 96.1538 | 91.6800 | 44 | 2 | 50 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e0 | * | 80.0736 | 72.4343 | 89.5141 | 91.6820 | 2675 | 1018 | 2911 | 341 | 39 | 11.4370 | |
| raldana-dualsentieon | INDEL | I6_15 | segdup | het | 99.3939 | 98.7952 | 100.0000 | 91.6836 | 82 | 1 | 82 | 0 | 0 | ||
| qzeng-custom | INDEL | * | map_l125_m2_e0 | * | 82.8587 | 74.2259 | 93.7640 | 91.6841 | 1630 | 566 | 2090 | 139 | 47 | 33.8129 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.5000 | 95.1220 | 100.0000 | 91.6844 | 39 | 2 | 39 | 0 | 0 | ||
| dgrover-gatk | SNP | * | map_l250_m0_e0 | homalt | 98.5600 | 97.9332 | 99.1948 | 91.6845 | 616 | 13 | 616 | 5 | 3 | 60.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e0 | * | 83.0189 | 80.4878 | 85.7143 | 91.6847 | 66 | 16 | 66 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l100_m0_e0 | het | 94.7997 | 98.0411 | 91.7658 | 91.6857 | 1001 | 20 | 1003 | 90 | 4 | 4.4444 | |
| cchapple-custom | SNP | * | map_l250_m2_e1 | het | 95.2117 | 95.7257 | 94.7032 | 91.6862 | 5039 | 225 | 5042 | 282 | 65 | 23.0496 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 72.8837 | 58.1081 | 97.7358 | 91.6876 | 258 | 186 | 259 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | homalt | 97.8208 | 96.3434 | 99.3443 | 91.6882 | 606 | 23 | 606 | 4 | 4 | 100.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.7193 | 100.0000 | 78.1250 | 91.6883 | 25 | 0 | 25 | 7 | 6 | 85.7143 | |
| eyeh-varpipe | INDEL | D6_15 | map_l150_m1_e0 | homalt | 82.2909 | 80.7692 | 83.8710 | 91.6890 | 21 | 5 | 26 | 5 | 5 | 100.0000 | |
| ckim-gatk | INDEL | * | map_l150_m0_e0 | homalt | 98.7879 | 99.3902 | 98.1928 | 91.6917 | 163 | 1 | 163 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l150_m0_e0 | * | 94.4444 | 94.1176 | 94.7735 | 91.6932 | 272 | 17 | 272 | 15 | 6 | 40.0000 | |
| eyeh-varpipe | SNP | tv | segdup | * | 97.0429 | 99.8476 | 94.3914 | 91.6933 | 8519 | 13 | 8398 | 499 | 11 | 2.2044 | |
| ckim-vqsr | SNP | * | map_l150_m2_e0 | het | 78.1444 | 64.8041 | 98.4007 | 91.6936 | 13047 | 7086 | 13044 | 212 | 2 | 0.9434 | |
| hfeng-pmm3 | INDEL | D6_15 | segdup | homalt | 99.0099 | 100.0000 | 98.0392 | 91.6938 | 50 | 0 | 50 | 1 | 1 | 100.0000 | |