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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56601-56650 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | ti | map_l125_m2_e0 | * | 98.2029 | 98.6946 | 97.7160 | 76.3322 | 29863 | 395 | 29863 | 698 | 158 | 22.6361 | |
| dgrover-gatk | SNP | * | map_l150_m2_e0 | * | 99.1679 | 99.1680 | 99.1679 | 78.4218 | 31587 | 265 | 31581 | 265 | 60 | 22.6415 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e0 | * | 98.1257 | 98.0916 | 98.1597 | 90.1683 | 2827 | 55 | 2827 | 53 | 12 | 22.6415 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e1 | * | 98.1475 | 98.1139 | 98.1812 | 90.2264 | 2861 | 55 | 2861 | 53 | 12 | 22.6415 | |
| hfeng-pmm1 | SNP | ti | map_siren | het | 99.5806 | 99.3331 | 99.8292 | 52.2251 | 61966 | 416 | 61957 | 106 | 24 | 22.6415 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e1 | het | 84.1666 | 98.0843 | 73.7079 | 91.1768 | 512 | 10 | 656 | 234 | 53 | 22.6496 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.0716 | 49.9257 | 63.9431 | 62.6651 | 2017 | 2023 | 3506 | 1977 | 448 | 22.6606 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.4318 | 96.0944 | 92.8258 | 50.7186 | 3543 | 144 | 3597 | 278 | 63 | 22.6619 | |
| anovak-vg | SNP | * | map_l150_m2_e1 | het | 76.0838 | 90.1144 | 65.8336 | 81.6880 | 18350 | 2013 | 18149 | 9419 | 2135 | 22.6669 | |
| anovak-vg | SNP | tv | map_l250_m1_e0 | het | 70.5665 | 85.7303 | 59.9607 | 91.6253 | 1532 | 255 | 1526 | 1019 | 231 | 22.6693 | |
| anovak-vg | SNP | * | map_l150_m2_e0 | het | 75.9821 | 90.0512 | 65.7151 | 81.6508 | 18130 | 2003 | 17933 | 9356 | 2121 | 22.6699 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.1225 | 98.0932 | 96.1709 | 56.3915 | 11215 | 218 | 11076 | 441 | 100 | 22.6757 | |
| gduggal-snapfb | INDEL | I1_5 | * | het | 94.5346 | 97.1091 | 92.0931 | 57.7460 | 76756 | 2285 | 82322 | 7068 | 1603 | 22.6797 | |
| anovak-vg | SNP | ti | map_l150_m2_e1 | * | 79.8681 | 86.0107 | 74.5445 | 79.9452 | 17824 | 2899 | 17673 | 6035 | 1369 | 22.6843 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e0 | het | 84.3060 | 98.2490 | 73.8286 | 91.1437 | 505 | 9 | 646 | 229 | 52 | 22.7074 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | het | 96.1245 | 97.3395 | 94.9395 | 78.6207 | 28538 | 780 | 28573 | 1523 | 346 | 22.7183 | |
| ciseli-custom | INDEL | * | map_l250_m0_e0 | het | 51.9039 | 49.0566 | 55.1020 | 98.7937 | 26 | 27 | 27 | 22 | 5 | 22.7273 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e0 | * | 81.1136 | 75.5435 | 87.5706 | 97.8091 | 139 | 45 | 155 | 22 | 5 | 22.7273 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e0 | het | 81.0385 | 79.3388 | 82.8125 | 97.9338 | 96 | 25 | 106 | 22 | 5 | 22.7273 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e1 | * | 81.2198 | 75.6757 | 87.6404 | 97.8476 | 140 | 45 | 156 | 22 | 5 | 22.7273 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e1 | het | 81.1906 | 79.5082 | 82.9457 | 97.9666 | 97 | 25 | 107 | 22 | 5 | 22.7273 | |
| hfeng-pmm1 | SNP | ti | map_l250_m1_e0 | * | 98.9508 | 98.8644 | 99.0374 | 88.1947 | 4527 | 52 | 4527 | 44 | 10 | 22.7273 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e0 | * | 99.0408 | 98.9617 | 99.1200 | 88.5996 | 4956 | 52 | 4956 | 44 | 10 | 22.7273 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e1 | * | 99.0337 | 98.9362 | 99.1315 | 88.6771 | 5022 | 54 | 5022 | 44 | 10 | 22.7273 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | het | 99.8377 | 99.6899 | 99.9860 | 16.6225 | 313790 | 976 | 313739 | 44 | 10 | 22.7273 | |
| hfeng-pmm3 | SNP | * | HG002compoundhet | het | 96.0659 | 92.5730 | 99.8327 | 43.9121 | 13125 | 1053 | 13125 | 22 | 5 | 22.7273 | |
| jli-custom | INDEL | * | map_l100_m0_e0 | het | 97.8452 | 97.8452 | 97.8452 | 85.1642 | 999 | 22 | 999 | 22 | 5 | 22.7273 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.4677 | 94.4444 | 96.5135 | 88.1879 | 629 | 37 | 609 | 22 | 5 | 22.7273 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.4677 | 94.4444 | 96.5135 | 88.1879 | 629 | 37 | 609 | 22 | 5 | 22.7273 | |
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 35.2941 | 96.2596 | 0 | 0 | 12 | 22 | 5 | 22.7273 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m0_e0 | * | 90.8072 | 93.7500 | 88.0435 | 93.4682 | 165 | 11 | 162 | 22 | 5 | 22.7273 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.5857 | 99.1728 | 98.0054 | 86.8862 | 1079 | 9 | 1081 | 22 | 5 | 22.7273 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e0 | * | 98.6532 | 99.2126 | 98.1002 | 87.4743 | 1134 | 9 | 1136 | 22 | 5 | 22.7273 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6694 | 99.2221 | 98.1229 | 87.5306 | 1148 | 9 | 1150 | 22 | 5 | 22.7273 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.1373 | 99.3577 | 98.9179 | 69.5704 | 2011 | 13 | 2011 | 22 | 5 | 22.7273 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.8896 | 99.2565 | 98.5255 | 64.2421 | 2937 | 22 | 2940 | 44 | 10 | 22.7273 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | het | 98.1329 | 98.3473 | 97.9194 | 91.5436 | 5177 | 87 | 5177 | 110 | 25 | 22.7273 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | homalt | 84.4830 | 77.2455 | 93.2169 | 48.7355 | 903 | 266 | 907 | 66 | 15 | 22.7273 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 21.4286 | 90.0000 | 0 | 0 | 6 | 22 | 5 | 22.7273 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 98.8105 | 98.8095 | 98.8115 | 84.8192 | 1826 | 22 | 1829 | 22 | 5 | 22.7273 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 98.8260 | 98.7990 | 98.8530 | 85.3498 | 1892 | 23 | 1896 | 22 | 5 | 22.7273 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 98.8405 | 98.8138 | 98.8671 | 85.4314 | 1916 | 23 | 1920 | 22 | 5 | 22.7273 | |
| anovak-vg | SNP | ti | map_l150_m2_e0 | * | 79.7989 | 85.9302 | 74.4843 | 79.9053 | 17626 | 2886 | 17477 | 5987 | 1363 | 22.7660 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | * | 96.9367 | 97.1235 | 96.7507 | 75.0489 | 45379 | 1344 | 45379 | 1524 | 347 | 22.7690 | |
| qzeng-custom | INDEL | * | map_siren | homalt | 90.9652 | 86.4030 | 96.0361 | 77.3592 | 2294 | 361 | 2447 | 101 | 23 | 22.7723 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e1 | * | 83.7200 | 78.4062 | 89.8065 | 94.3591 | 610 | 168 | 696 | 79 | 18 | 22.7848 | |
| dgrover-gatk | INDEL | * | map_siren | * | 98.9418 | 98.9474 | 98.9362 | 83.4662 | 7332 | 78 | 7347 | 79 | 18 | 22.7848 | |
| gduggal-snapvard | INDEL | * | map_l250_m1_e0 | * | 77.4944 | 91.1475 | 67.3986 | 95.4162 | 278 | 27 | 399 | 193 | 44 | 22.7979 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e1 | * | 74.1036 | 59.0623 | 99.4240 | 88.9166 | 9838 | 6819 | 9838 | 57 | 13 | 22.8070 | |
| gduggal-bwaplat | SNP | tv | map_l125_m2_e1 | het | 78.9711 | 65.6022 | 99.1834 | 90.4624 | 6923 | 3630 | 6923 | 57 | 13 | 22.8070 | |