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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58201-58250 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | * | HG002compoundhet | hetalt | 96.7848 | 93.7847 | 99.9831 | 50.6733 | 23615 | 1565 | 23731 | 4 | 2 | 50.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.1130 | 95.4143 | 96.8220 | 50.6721 | 14107 | 678 | 14106 | 463 | 453 | 97.8402 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.1234 | 70.6347 | 84.9247 | 50.6689 | 9737 | 4048 | 9864 | 1751 | 1570 | 89.6630 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 63.4640 | 52.6659 | 79.8319 | 50.6633 | 1857 | 1669 | 475 | 120 | 116 | 96.6667 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 63.4640 | 52.6659 | 79.8319 | 50.6633 | 1857 | 1669 | 475 | 120 | 116 | 96.6667 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 69.4825 | 55.4545 | 93.0108 | 50.6631 | 183 | 147 | 173 | 13 | 9 | 69.2308 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2848 | 99.4427 | 99.1274 | 50.6623 | 10349 | 58 | 10338 | 91 | 83 | 91.2088 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5326 | 100.0000 | 99.0695 | 50.6581 | 1580 | 0 | 1597 | 15 | 0 | 0.0000 | |
| jli-custom | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 50.6579 | 75 | 2 | 75 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | * | HG002compoundhet | hetalt | 95.8717 | 92.3153 | 99.7130 | 50.6553 | 23245 | 1935 | 23276 | 67 | 66 | 98.5075 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7421 | 99.5938 | 99.8908 | 50.6550 | 14710 | 60 | 14636 | 16 | 7 | 43.7500 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.3705 | 92.2714 | 94.4961 | 50.6515 | 2543 | 213 | 2541 | 148 | 144 | 97.2973 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9586 | 98.9331 | 97.0031 | 50.6413 | 17989 | 194 | 18029 | 557 | 149 | 26.7504 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.3642 | 66.6334 | 86.7280 | 50.6405 | 9350 | 4682 | 2640 | 404 | 232 | 57.4257 | |
| ltrigg-rtg1 | INDEL | I1_5 | * | homalt | 99.7620 | 99.6227 | 99.9017 | 50.6392 | 60199 | 228 | 59978 | 59 | 47 | 79.6610 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1507 | 97.5083 | 94.8304 | 50.6380 | 587 | 15 | 587 | 32 | 31 | 96.8750 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6069 | 99.7147 | 97.5235 | 50.6371 | 2796 | 8 | 2796 | 71 | 71 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 23.7409 | 20.8999 | 27.4757 | 50.6350 | 576 | 2180 | 566 | 1494 | 1477 | 98.8621 | |
| ciseli-custom | INDEL | * | tech_badpromoters | het | 56.4103 | 56.4103 | 56.4103 | 50.6329 | 22 | 17 | 22 | 17 | 10 | 58.8235 | |
| raldana-dualsentieon | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 50.6329 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6664 | 95.9541 | 99.4410 | 50.6296 | 5692 | 240 | 5692 | 32 | 30 | 93.7500 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3332 | 99.5580 | 99.1095 | 50.6288 | 10361 | 46 | 10350 | 93 | 84 | 90.3226 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 80.3613 | 90.7407 | 72.1127 | 50.6259 | 245 | 25 | 256 | 99 | 99 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.7727 | 95.5114 | 96.0354 | 50.6248 | 5426 | 255 | 5426 | 224 | 95 | 42.4107 | |
| mlin-fermikit | INDEL | I6_15 | HG002compoundhet | homalt | 11.9676 | 93.5484 | 6.3927 | 50.6201 | 29 | 2 | 28 | 410 | 408 | 99.5122 | |
| egarrison-hhga | SNP | * | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 50.6173 | 80 | 0 | 80 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | func_cds | * | 100.0000 | 100.0000 | 100.0000 | 50.6173 | 159 | 0 | 160 | 0 | 0 | ||
| jpowers-varprowl | SNP | * | tech_badpromoters | homalt | 98.7500 | 98.7500 | 98.7500 | 50.6173 | 79 | 1 | 79 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8615 | 94.2539 | 99.6175 | 50.6158 | 6512 | 397 | 6511 | 25 | 20 | 80.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.7268 | 94.6662 | 98.8792 | 50.6141 | 2822 | 159 | 2823 | 32 | 28 | 87.5000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4647 | 99.0705 | 99.8621 | 50.6131 | 3624 | 34 | 3620 | 5 | 1 | 20.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.6210 | 97.6408 | 99.6211 | 50.6118 | 6746 | 163 | 6836 | 26 | 12 | 46.1538 | |
| ndellapenna-hhga | SNP | * | tech_badpromoters | homalt | 99.3789 | 100.0000 | 98.7654 | 50.6098 | 80 | 0 | 80 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1129 | 91.7634 | 94.5026 | 50.6095 | 2529 | 227 | 2527 | 147 | 143 | 97.2789 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.4484 | 76.9057 | 98.6947 | 50.6089 | 1362 | 409 | 1361 | 18 | 16 | 88.8889 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 57.8720 | 92.5676 | 42.0945 | 50.6085 | 137 | 11 | 205 | 282 | 275 | 97.5177 | |
| hfeng-pmm1 | INDEL | D6_15 | * | homalt | 99.4474 | 99.5732 | 99.3220 | 50.6075 | 6299 | 27 | 6299 | 43 | 42 | 97.6744 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1586 | 95.2030 | 99.1964 | 50.6041 | 2838 | 143 | 2839 | 23 | 18 | 78.2609 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.9055 | 69.1535 | 84.1187 | 50.6034 | 482 | 215 | 482 | 91 | 88 | 96.7033 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6716 | 99.6463 | 99.6968 | 50.6032 | 11833 | 42 | 11838 | 36 | 19 | 52.7778 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1030 | 98.2511 | 99.9699 | 50.6031 | 10000 | 178 | 9949 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | * | tech_badpromoters | het | 97.5000 | 100.0000 | 95.1220 | 50.6024 | 39 | 0 | 39 | 2 | 0 | 0.0000 | |
| mlin-fermikit | SNP | ti | map_l100_m1_e0 | * | 73.0893 | 60.7644 | 91.6861 | 50.6018 | 29125 | 18806 | 29125 | 2641 | 2337 | 88.4892 | |
| jlack-gatk | SNP | * | tech_badpromoters | het | 95.6522 | 100.0000 | 91.6667 | 50.5882 | 77 | 0 | 77 | 7 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I1_5 | * | homalt | 98.3593 | 98.3799 | 98.3387 | 50.5872 | 59449 | 979 | 59371 | 1003 | 989 | 98.6042 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.0708 | 69.3739 | 97.5118 | 50.5855 | 820 | 362 | 823 | 21 | 20 | 95.2381 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8152 | 99.6720 | 99.9589 | 50.5792 | 2431 | 8 | 2431 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0804 | 98.3246 | 99.8480 | 50.5717 | 5986 | 102 | 5913 | 9 | 5 | 55.5556 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.1734 | 98.5778 | 99.7763 | 50.5713 | 1317 | 19 | 1338 | 3 | 1 | 33.3333 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.6118 | 96.7950 | 81.7043 | 50.5663 | 4953 | 164 | 4957 | 1110 | 1047 | 94.3243 | |