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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57101-57150 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8285 | 93.5953 | 98.1707 | 81.2678 | 643 | 44 | 644 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l150_m1_e0 | * | 96.7936 | 95.4545 | 98.1707 | 88.6006 | 483 | 23 | 483 | 9 | 2 | 22.2222 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 95.8927 | 93.7179 | 98.1709 | 38.9030 | 11129 | 746 | 11110 | 207 | 127 | 61.3527 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e1 | homalt | 94.3455 | 90.8065 | 98.1716 | 76.0928 | 563 | 57 | 698 | 13 | 12 | 92.3077 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | hetalt | 58.5449 | 41.7091 | 98.1717 | 64.4031 | 4261 | 5955 | 5316 | 99 | 95 | 95.9596 | |
| jlack-gatk | INDEL | * | HG002complexvar | hetalt | 94.5505 | 91.1868 | 98.1719 | 68.2876 | 3373 | 326 | 3598 | 67 | 62 | 92.5373 | |
| ltrigg-rtg2 | SNP | ti | segdup | het | 98.8445 | 99.5262 | 98.1721 | 86.1250 | 11973 | 57 | 11977 | 223 | 1 | 0.4484 | |
| ckim-gatk | SNP | ti | map_l125_m1_e0 | * | 84.6397 | 74.3855 | 98.1731 | 83.5274 | 21821 | 7514 | 21817 | 406 | 44 | 10.8374 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.7949 | 99.4246 | 98.1731 | 74.1057 | 30584 | 177 | 31383 | 584 | 402 | 68.8356 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8506 | 99.5370 | 98.1735 | 65.0160 | 215 | 1 | 215 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.1515 | 96.1503 | 98.1737 | 71.9585 | 2073 | 83 | 2204 | 41 | 32 | 78.0488 | |
| qzeng-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7057 | 99.2433 | 98.1739 | 67.8653 | 35151 | 268 | 35268 | 656 | 60 | 9.1463 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8809 | 89.9476 | 98.1740 | 49.0700 | 7552 | 844 | 7527 | 140 | 92 | 65.7143 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.1514 | 90.4452 | 98.1743 | 66.8941 | 1666 | 176 | 1667 | 31 | 27 | 87.0968 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m0_e0 | * | 97.7751 | 97.3790 | 98.1744 | 86.5042 | 483 | 13 | 484 | 9 | 2 | 22.2222 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 98.3008 | 98.4273 | 98.1747 | 90.2973 | 751 | 12 | 753 | 14 | 3 | 21.4286 | |
| ciseli-custom | SNP | ti | * | homalt | 98.8778 | 99.5909 | 98.1749 | 17.4213 | 799754 | 3285 | 797240 | 14821 | 7334 | 49.4838 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.7142 | 99.2593 | 98.1752 | 59.8829 | 268 | 2 | 269 | 5 | 4 | 80.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | * | 89.2166 | 81.7563 | 98.1753 | 78.5878 | 59194 | 13209 | 59183 | 1100 | 78 | 7.0909 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e0 | het | 98.4559 | 98.7380 | 98.1754 | 76.1231 | 28948 | 370 | 28948 | 538 | 123 | 22.8625 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m0_e0 | * | 80.7640 | 68.5979 | 98.1758 | 85.4699 | 592 | 271 | 592 | 11 | 4 | 36.3636 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m0_e0 | het | 98.3211 | 98.4663 | 98.1763 | 86.9289 | 321 | 5 | 323 | 6 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m1_e0 | homalt | 98.6273 | 99.0826 | 98.1763 | 88.7097 | 324 | 3 | 323 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | SNP | tv | map_siren | * | 98.2043 | 98.2321 | 98.1765 | 64.5026 | 45118 | 812 | 45118 | 838 | 186 | 22.1957 | |
| gduggal-snapfb | SNP | * | HG002complexvar | het | 98.8655 | 99.5639 | 98.1768 | 21.9725 | 463470 | 2030 | 464235 | 8621 | 899 | 10.4280 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.5454 | 94.9673 | 98.1769 | 85.0222 | 1453 | 77 | 1454 | 27 | 18 | 66.6667 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 92.4174 | 87.2960 | 98.1771 | 57.2145 | 749 | 109 | 754 | 14 | 4 | 28.5714 | |
| raldana-dualsentieon | SNP | ti | map_l125_m0_e0 | het | 98.3262 | 98.4751 | 98.1776 | 75.7875 | 8137 | 126 | 8135 | 151 | 1 | 0.6623 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7120 | 95.2896 | 98.1776 | 52.4952 | 5462 | 270 | 7542 | 140 | 133 | 95.0000 | |
| ckim-gatk | SNP | ti | map_l100_m0_e0 | * | 83.4318 | 72.5369 | 98.1781 | 82.8871 | 15792 | 5979 | 15789 | 293 | 37 | 12.6280 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m0_e0 | * | 98.5355 | 98.8950 | 98.1785 | 84.8343 | 537 | 6 | 539 | 10 | 3 | 30.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m2_e0 | homalt | 98.6471 | 99.1202 | 98.1785 | 85.0123 | 338 | 3 | 539 | 10 | 9 | 90.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2889 | 98.3993 | 98.1788 | 72.3290 | 3504 | 57 | 3504 | 65 | 45 | 69.2308 | |
| ckim-gatk | SNP | ti | map_l125_m2_e0 | * | 85.0542 | 75.0248 | 98.1789 | 84.5122 | 22701 | 7557 | 22697 | 421 | 45 | 10.6888 | |
| hfeng-pmm1 | SNP | ti | map_l250_m0_e0 | * | 98.2865 | 98.3942 | 98.1792 | 92.9532 | 1348 | 22 | 1348 | 25 | 5 | 20.0000 | |
| ndellapenna-hhga | INDEL | * | map_l150_m2_e1 | * | 97.6974 | 97.2203 | 98.1793 | 98.7700 | 1399 | 40 | 1402 | 26 | 10 | 38.4615 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.8869 | 99.6041 | 98.1799 | 38.4191 | 10316 | 41 | 10303 | 191 | 187 | 97.9058 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0301 | 99.8948 | 98.1803 | 50.4508 | 4748 | 5 | 4748 | 88 | 87 | 98.8636 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0407 | 99.9158 | 98.1807 | 50.4457 | 4749 | 4 | 4749 | 88 | 87 | 98.8636 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e1 | * | 98.1475 | 98.1139 | 98.1812 | 90.2264 | 2861 | 55 | 2861 | 53 | 12 | 22.6415 | |
| ckim-vqsr | INDEL | * | HG002complexvar | hetalt | 91.5318 | 85.7259 | 98.1813 | 66.4504 | 3171 | 528 | 3401 | 63 | 63 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.3095 | 98.4375 | 98.1818 | 86.2989 | 378 | 6 | 378 | 7 | 2 | 28.5714 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.3618 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m1_e0 | homalt | 70.1299 | 54.5455 | 98.1818 | 84.2632 | 108 | 90 | 108 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.6277 | 95.1220 | 98.1818 | 88.6246 | 234 | 12 | 216 | 4 | 2 | 50.0000 | |
| dgrover-gatk | INDEL | I6_15 | map_l100_m1_e0 | * | 96.4286 | 94.7368 | 98.1818 | 87.9913 | 108 | 6 | 108 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I6_15 | map_l100_m1_e0 | het | 94.7368 | 91.5254 | 98.1818 | 84.8485 | 54 | 5 | 54 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.4541 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | map_l100_m1_e0 | * | 96.4286 | 94.7368 | 98.1818 | 87.5425 | 108 | 6 | 108 | 2 | 1 | 50.0000 | |