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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69851-69900 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | ti | map_l125_m2_e1 | homalt | 99.5050 | 99.1272 | 99.8857 | 70.0171 | 11358 | 100 | 11358 | 13 | 7 | 53.8462 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l250_m1_e0 | * | 58.6777 | 41.5205 | 100.0000 | 98.7278 | 71 | 100 | 71 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m2_e0 | * | 76.1021 | 62.1212 | 98.2036 | 94.2215 | 164 | 100 | 164 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 59.7610 | 42.8571 | 98.6842 | 72.9537 | 75 | 100 | 75 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | func_cds | * | 99.4984 | 99.2747 | 99.7231 | 31.1374 | 13687 | 100 | 13687 | 38 | 4 | 10.5263 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e0 | het | 93.4243 | 92.8109 | 94.0459 | 85.2736 | 1291 | 100 | 1311 | 83 | 14 | 16.8675 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e1 | het | 93.4708 | 92.8977 | 94.0510 | 85.3951 | 1308 | 100 | 1328 | 84 | 14 | 16.6667 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4965 | 92.9078 | 98.2335 | 72.2151 | 1310 | 100 | 1279 | 23 | 15 | 65.2174 | |
| jlack-gatk | SNP | ti | map_l250_m2_e1 | * | 94.3407 | 98.0299 | 90.9191 | 92.8360 | 4976 | 100 | 4976 | 497 | 46 | 9.2555 | |
| hfeng-pmm3 | SNP | tv | map_l100_m1_e0 | * | 99.6386 | 99.5919 | 99.6854 | 64.5700 | 24401 | 100 | 24397 | 77 | 10 | 12.9870 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e0 | * | 99.6443 | 99.6005 | 99.6881 | 66.3015 | 24933 | 100 | 24929 | 78 | 10 | 12.8205 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | * | 99.6458 | 99.6045 | 99.6872 | 66.3290 | 25183 | 100 | 25179 | 79 | 10 | 12.6582 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.6879 | 92.0949 | 99.5726 | 86.9710 | 1165 | 100 | 1165 | 5 | 3 | 60.0000 | |
| hfeng-pmm2 | SNP | tv | map_l100_m1_e0 | * | 99.4801 | 99.5919 | 99.3687 | 67.2876 | 24401 | 100 | 24397 | 155 | 17 | 10.9677 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e0 | * | 99.4872 | 99.6005 | 99.3742 | 68.8945 | 24933 | 100 | 24929 | 157 | 17 | 10.8280 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | * | 99.4903 | 99.6045 | 99.3764 | 68.9155 | 25183 | 100 | 25179 | 158 | 17 | 10.7595 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.8121 | 88.0383 | 98.1333 | 66.6073 | 736 | 100 | 736 | 14 | 12 | 85.7143 | |
| hfeng-pmm1 | SNP | tv | map_l150_m2_e0 | * | 99.3292 | 99.1193 | 99.5400 | 75.2398 | 11255 | 100 | 11253 | 52 | 14 | 26.9231 | |
| rpoplin-dv42 | SNP | * | map_l125_m0_e0 | homalt | 99.0933 | 98.5101 | 99.6834 | 69.3810 | 6612 | 100 | 6612 | 21 | 20 | 95.2381 | |
| rpoplin-dv42 | SNP | * | map_l250_m1_e0 | het | 98.0000 | 97.8970 | 98.1033 | 87.6817 | 4655 | 100 | 4655 | 90 | 55 | 61.1111 | |
| raldana-dualsentieon | SNP | * | map_siren | homalt | 99.8920 | 99.8187 | 99.9655 | 49.6673 | 55056 | 100 | 55047 | 19 | 19 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7238 | 99.6461 | 99.8015 | 61.5050 | 28160 | 100 | 28162 | 56 | 44 | 78.5714 | |
| gduggal-snapplat | SNP | * | segdup | homalt | 99.4486 | 99.0692 | 99.8310 | 88.7280 | 10643 | 100 | 10636 | 18 | 13 | 72.2222 | |
| ghariani-varprowl | INDEL | * | map_l100_m1_e0 | homalt | 94.7855 | 91.8500 | 97.9149 | 78.8807 | 1127 | 100 | 1127 | 24 | 8 | 33.3333 | |
| ghariani-varprowl | SNP | * | segdup | * | 97.8779 | 99.6437 | 96.1737 | 92.2561 | 27967 | 100 | 27975 | 1113 | 70 | 6.2893 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 24.7191 | 18.0328 | 39.2857 | 73.0769 | 22 | 100 | 22 | 34 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.4760 | 30.0699 | 25.2941 | 98.0122 | 43 | 100 | 43 | 127 | 9 | 7.0866 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 47.6817 | 34.6405 | 76.4706 | 72.3577 | 53 | 100 | 52 | 16 | 16 | 100.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m1_e0 | * | 66.5172 | 61.2403 | 72.7891 | 82.3635 | 158 | 100 | 214 | 80 | 56 | 70.0000 | |
| gduggal-snapvard | SNP | * | map_l250_m0_e0 | het | 74.0125 | 93.3599 | 61.3074 | 94.5783 | 1406 | 100 | 1388 | 876 | 18 | 2.0548 | |
| gduggal-snapvard | SNP | ti | map_l250_m0_e0 | * | 79.9224 | 92.7007 | 70.2401 | 94.4256 | 1270 | 100 | 1258 | 533 | 20 | 3.7524 | |
| anovak-vg | INDEL | * | map_l250_m2_e0 | * | 67.7533 | 69.7885 | 65.8333 | 96.4399 | 231 | 100 | 237 | 123 | 63 | 51.2195 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | * | 67.7462 | 69.9700 | 65.6593 | 96.4861 | 233 | 100 | 239 | 125 | 63 | 50.4000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9721 | 88.4125 | 91.5877 | 56.8507 | 763 | 100 | 773 | 71 | 41 | 57.7465 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 9.8728 | 5.6604 | 38.5965 | 58.6957 | 6 | 100 | 22 | 35 | 3 | 8.5714 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5247 | 93.9357 | 99.2605 | 36.0262 | 1549 | 100 | 1745 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4715 | 90.0200 | 97.1983 | 64.9943 | 902 | 100 | 902 | 26 | 23 | 88.4615 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6226 | 99.6991 | 99.5463 | 74.7408 | 33136 | 100 | 33130 | 151 | 120 | 79.4702 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.3367 | 84.1772 | 99.8273 | 38.7302 | 532 | 100 | 578 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.8400 | 87.9187 | 96.1276 | 66.5396 | 735 | 101 | 844 | 34 | 30 | 88.2353 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | het | 98.9661 | 99.2777 | 98.6565 | 72.6282 | 13882 | 101 | 13879 | 189 | 28 | 14.8148 | |
| bgallagher-sentieon | SNP | ti | map_l125_m0_e0 | * | 98.9758 | 99.2086 | 98.7441 | 75.3623 | 12661 | 101 | 12659 | 161 | 31 | 19.2547 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.8058 | 95.8213 | 93.8116 | 73.3592 | 2316 | 101 | 2380 | 157 | 134 | 85.3503 | |
| astatham-gatk | INDEL | * | map_l125_m2_e0 | het | 94.9267 | 92.7390 | 97.2201 | 89.8845 | 1290 | 101 | 1294 | 37 | 5 | 13.5135 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.8144 | 80.8349 | 98.5418 | 47.2042 | 426 | 101 | 1284 | 19 | 19 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1685 | 99.1166 | 97.2384 | 51.9217 | 11332 | 101 | 11373 | 323 | 59 | 18.2663 | |
| jli-custom | SNP | ti | HG002complexvar | homalt | 99.9648 | 99.9478 | 99.9819 | 18.3860 | 193362 | 101 | 193356 | 35 | 26 | 74.2857 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.1925 | 58.9431 | 48.4642 | 77.5994 | 145 | 101 | 142 | 151 | 149 | 98.6755 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 55.1985 | 59.1093 | 51.7730 | 72.4878 | 146 | 101 | 146 | 136 | 136 | 100.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.1757 | 96.1815 | 94.1907 | 88.8007 | 2544 | 101 | 2578 | 159 | 6 | 3.7736 | |