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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1851-1900 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | * | map_l125_m0_e0 | * | 94.5944 | 98.3647 | 91.1024 | 82.9942 | 19068 | 317 | 19065 | 1862 | 148 | 7.9484 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | het | 76.8817 | 88.8434 | 67.7587 | 83.1340 | 3910 | 491 | 3909 | 1860 | 528 | 28.3871 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 35.5756 | 100.0000 | 21.6364 | 89.6259 | 1 | 0 | 513 | 1858 | 127 | 6.8353 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 35.5756 | 100.0000 | 21.6364 | 89.6259 | 1 | 0 | 513 | 1858 | 127 | 6.8353 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2752 | 94.6742 | 95.8839 | 71.5291 | 43268 | 2434 | 43282 | 1858 | 1107 | 59.5802 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2752 | 94.6742 | 95.8839 | 71.5291 | 43268 | 2434 | 43282 | 1858 | 1107 | 59.5802 | |
| gduggal-snapfb | INDEL | I1_5 | HG002compoundhet | het | 76.4321 | 76.3529 | 76.5115 | 47.4370 | 649 | 201 | 6049 | 1857 | 595 | 32.0409 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 68.8773 | 63.7081 | 74.9595 | 62.4506 | 5326 | 3034 | 5550 | 1854 | 1409 | 75.9978 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 68.8773 | 63.7081 | 74.9595 | 62.4506 | 5326 | 3034 | 5550 | 1854 | 1409 | 75.9978 | |
| gduggal-bwavard | SNP | ti | map_l100_m1_e0 | het | 95.5858 | 97.2580 | 93.9701 | 77.5354 | 29121 | 821 | 28877 | 1853 | 139 | 7.5014 | |
| gduggal-bwavard | SNP | tv | map_siren | het | 95.7305 | 97.7804 | 93.7647 | 72.5806 | 27974 | 635 | 27865 | 1853 | 145 | 7.8252 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | het | 83.9896 | 84.9027 | 83.0960 | 44.5406 | 8070 | 1435 | 9104 | 1852 | 1542 | 83.2613 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.2178 | 95.1859 | 95.2497 | 71.1485 | 31636 | 1600 | 37135 | 1852 | 568 | 30.6695 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 86.9141 | 97.9686 | 78.1013 | 68.8863 | 6607 | 137 | 6598 | 1850 | 55 | 2.9730 | |
| mlin-fermikit | SNP | tv | HG002complexvar | * | 98.1368 | 97.0653 | 99.2323 | 22.0366 | 238931 | 7224 | 238861 | 1848 | 1739 | 94.1017 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 41.3700 | 79.5535 | 27.9532 | 77.8018 | 677 | 174 | 717 | 1848 | 48 | 2.5974 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 70.3858 | 62.2960 | 80.8903 | 55.0300 | 6452 | 3905 | 7814 | 1846 | 1272 | 68.9057 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e1 | * | 93.1692 | 96.8962 | 89.7183 | 79.8287 | 16140 | 517 | 16082 | 1843 | 125 | 6.7824 | |
| jlack-gatk | SNP | * | map_l125_m0_e0 | het | 92.5432 | 98.6576 | 87.1425 | 85.9677 | 12494 | 170 | 12491 | 1843 | 134 | 7.2708 | |
| qzeng-custom | INDEL | D1_5 | * | * | 98.2982 | 97.8575 | 98.7428 | 57.2067 | 143601 | 3144 | 144677 | 1842 | 1294 | 70.2497 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | * | 61.2798 | 52.8513 | 72.9065 | 39.3574 | 4773 | 4258 | 4954 | 1841 | 1725 | 93.6991 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 78.5723 | 72.6344 | 85.5675 | 52.9869 | 10739 | 4046 | 10909 | 1840 | 1594 | 86.6304 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e0 | * | 93.1565 | 96.9192 | 89.6752 | 79.7699 | 15981 | 508 | 15929 | 1834 | 123 | 6.7067 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 56.0346 | 92.0301 | 40.2800 | 69.6241 | 1224 | 106 | 1237 | 1834 | 1809 | 98.6369 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e1 | het | 90.7385 | 97.4983 | 84.8553 | 82.7554 | 10289 | 264 | 10259 | 1831 | 116 | 6.3353 | |
| gduggal-snapplat | INDEL | D6_15 | * | * | 49.9163 | 35.9727 | 81.5114 | 64.7243 | 9386 | 16706 | 8068 | 1830 | 539 | 29.4536 | |
| raldana-dualsentieon | INDEL | * | * | * | 99.1095 | 98.7566 | 99.4648 | 57.7282 | 340258 | 4284 | 340120 | 1830 | 1626 | 88.8525 | |
| ciseli-custom | SNP | ti | map_l125_m0_e0 | * | 78.8823 | 74.4554 | 83.8690 | 80.0753 | 9502 | 3260 | 9499 | 1827 | 513 | 28.0788 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.0468 | 83.2421 | 29.9463 | 79.5867 | 760 | 153 | 781 | 1827 | 29 | 1.5873 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e0 | het | 90.6936 | 97.4909 | 84.7824 | 82.7072 | 10180 | 262 | 10151 | 1822 | 114 | 6.2569 | |
| gduggal-snapvard | SNP | tv | map_l125_m1_e0 | * | 93.0563 | 96.9343 | 89.4767 | 78.3907 | 15525 | 491 | 15475 | 1820 | 120 | 6.5934 | |
| ckim-dragen | INDEL | * | HG002compoundhet | * | 93.6532 | 93.4379 | 93.8696 | 62.4863 | 27994 | 1966 | 27868 | 1820 | 1806 | 99.2308 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e1 | * | 71.2430 | 59.3165 | 89.1725 | 57.7345 | 14997 | 10286 | 14989 | 1820 | 1600 | 87.9121 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | * | 93.5349 | 92.9971 | 94.0789 | 54.5678 | 30424 | 2291 | 28886 | 1818 | 1258 | 69.1969 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 47.8303 | 45.4143 | 50.5177 | 68.7660 | 1847 | 2220 | 1854 | 1816 | 1681 | 92.5661 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 56.4307 | 91.8797 | 40.7201 | 70.5769 | 1222 | 108 | 1244 | 1811 | 1677 | 92.6008 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 64.7210 | 53.4249 | 82.0746 | 70.9149 | 8322 | 7255 | 8292 | 1811 | 1705 | 94.1469 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | * | 71.0756 | 59.1180 | 89.0970 | 57.6083 | 14799 | 10234 | 14791 | 1810 | 1594 | 88.0663 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | het | 88.1260 | 94.5093 | 82.5504 | 31.0108 | 809 | 47 | 8558 | 1809 | 764 | 42.2333 | |
| jpowers-varprowl | SNP | tv | * | homalt | 99.7396 | 99.9576 | 99.5225 | 24.1122 | 376963 | 160 | 377038 | 1809 | 1197 | 66.1692 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.2746 | 85.2632 | 38.7403 | 67.1378 | 1134 | 196 | 1144 | 1809 | 1797 | 99.3367 | |
| gduggal-snapvard | SNP | tv | map_l125_m1_e0 | het | 90.5242 | 97.5015 | 84.4788 | 81.5577 | 9873 | 253 | 9846 | 1809 | 112 | 6.1913 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 20.4886 | 18.2277 | 23.3898 | 80.8737 | 397 | 1781 | 552 | 1808 | 263 | 14.5465 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.7034 | 76.5182 | 67.4586 | 62.2452 | 3402 | 1044 | 3748 | 1808 | 1171 | 64.7677 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.1879 | 70.9467 | 84.6330 | 51.0225 | 9780 | 4005 | 9952 | 1807 | 1577 | 87.2717 | |
| raldana-dualsentieon | SNP | * | * | het | 99.8865 | 99.8694 | 99.9036 | 19.2179 | 1871141 | 2446 | 1871016 | 1806 | 43 | 2.3810 | |
| qzeng-custom | INDEL | I1_5 | * | * | 97.7958 | 96.8327 | 98.7782 | 55.3353 | 145892 | 4772 | 145850 | 1804 | 1184 | 65.6319 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | * | 93.7345 | 93.5147 | 93.9554 | 62.6967 | 28017 | 1943 | 27901 | 1795 | 1783 | 99.3315 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | * | 70.4651 | 58.3772 | 88.8661 | 53.8051 | 14303 | 10198 | 14295 | 1791 | 1587 | 88.6097 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3693 | 99.2326 | 91.7955 | 63.9797 | 20044 | 155 | 20005 | 1788 | 579 | 32.3826 | |