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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19001-19050 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4045 | 98.9789 | 99.8338 | 50.4652 | 6010 | 62 | 6006 | 10 | 5 | 50.0000 | |
| jli-custom | SNP | * | HG002compoundhet | * | 99.7328 | 99.7599 | 99.7058 | 41.1267 | 25760 | 62 | 25757 | 76 | 36 | 47.3684 | |
| jli-custom | SNP | ti | map_l100_m1_e0 | homalt | 99.7965 | 99.6548 | 99.9386 | 56.4067 | 17898 | 62 | 17898 | 11 | 11 | 100.0000 | |
| jli-custom | SNP | ti | map_l100_m2_e0 | homalt | 99.8004 | 99.6614 | 99.9398 | 59.0453 | 18247 | 62 | 18247 | 11 | 11 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_siren | het | 97.3536 | 98.6247 | 96.1148 | 86.8437 | 4446 | 62 | 4453 | 180 | 15 | 8.3333 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.6210 | 97.3818 | 93.9229 | 89.2161 | 2306 | 62 | 2411 | 156 | 50 | 32.0513 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6338 | 99.4406 | 99.8276 | 58.0012 | 11022 | 62 | 11004 | 19 | 1 | 5.2632 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e1 | * | 97.8083 | 97.2135 | 98.4105 | 86.0853 | 2163 | 62 | 2167 | 35 | 6 | 17.1429 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7610 | 99.6391 | 99.8833 | 55.2713 | 17115 | 62 | 17116 | 20 | 15 | 75.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_l100_m2_e1 | * | 50.6599 | 36.0825 | 85.0000 | 88.3721 | 35 | 62 | 34 | 6 | 5 | 83.3333 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | homalt | 98.6994 | 97.7189 | 99.6997 | 86.4012 | 2656 | 62 | 2656 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.4871 | 85.8770 | 97.8814 | 35.2538 | 377 | 62 | 462 | 10 | 8 | 80.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | het | 99.7743 | 99.6591 | 99.8897 | 57.8575 | 18127 | 62 | 18108 | 20 | 10 | 50.0000 | |
| bgallagher-sentieon | SNP | ti | map_l100_m2_e1 | homalt | 99.7943 | 99.6648 | 99.9241 | 59.4504 | 18432 | 62 | 18432 | 14 | 12 | 85.7143 | |
| anovak-vg | INDEL | I1_5 | map_l150_m0_e0 | het | 49.5474 | 41.5094 | 61.4458 | 95.8870 | 44 | 62 | 51 | 32 | 4 | 12.5000 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1094 | 96.1467 | 98.0916 | 47.8953 | 1547 | 62 | 1542 | 30 | 25 | 83.3333 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6046 | 94.9346 | 96.2841 | 59.3488 | 1162 | 62 | 1166 | 45 | 34 | 75.5556 | |
| astatham-gatk | INDEL | * | map_l150_m2_e1 | * | 96.4999 | 95.6915 | 97.3221 | 91.2120 | 1377 | 62 | 1381 | 38 | 8 | 21.0526 | |
| gduggal-snapvard | INDEL | I6_15 | map_siren | homalt | 46.8227 | 31.1111 | 94.5946 | 68.9076 | 28 | 62 | 35 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 90.2657 | 96.6139 | 84.7002 | 79.3155 | 1769 | 62 | 1766 | 319 | 5 | 1.5674 | |
| ghariani-varprowl | INDEL | I1_5 | map_siren | homalt | 95.6739 | 94.8845 | 96.4765 | 70.7843 | 1150 | 62 | 1150 | 42 | 15 | 35.7143 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.4684 | 99.6391 | 97.3249 | 58.7610 | 17115 | 62 | 17136 | 471 | 62 | 13.1635 | |
| hfeng-pmm1 | INDEL | * | map_l125_m1_e0 | * | 97.9886 | 97.0574 | 98.9377 | 85.1509 | 2045 | 62 | 2049 | 22 | 4 | 18.1818 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m0_e0 | homalt | 86.0150 | 75.9690 | 99.1228 | 89.0173 | 196 | 62 | 226 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 16.2162 | 8.8235 | 100.0000 | 96.6480 | 6 | 62 | 6 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 16.2162 | 8.8235 | 100.0000 | 96.8750 | 6 | 62 | 6 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 33.8229 | 23.4568 | 60.6061 | 79.8780 | 19 | 62 | 20 | 13 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 67.5325 | 67.7083 | 67.3575 | 24.9027 | 130 | 62 | 130 | 63 | 63 | 100.0000 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.4080 | 98.2055 | 80.3880 | 75.9570 | 3393 | 62 | 3398 | 829 | 114 | 13.7515 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e0 | homalt | 95.9430 | 93.3831 | 98.6471 | 93.4664 | 875 | 62 | 875 | 12 | 5 | 41.6667 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 83.6630 | 95.0637 | 74.7040 | 77.8987 | 1194 | 62 | 1199 | 406 | 377 | 92.8571 | |
| raldana-dualsentieon | SNP | ti | map_l250_m2_e0 | het | 97.5401 | 98.0947 | 96.9918 | 89.4930 | 3192 | 62 | 3192 | 99 | 2 | 2.0202 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8088 | 99.7806 | 99.8371 | 58.7309 | 28198 | 62 | 28192 | 46 | 19 | 41.3043 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.7737 | 95.3383 | 96.2131 | 64.2456 | 1268 | 62 | 2998 | 118 | 110 | 93.2203 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m1_e0 | homalt | 81.4736 | 82.2350 | 80.7263 | 86.0483 | 287 | 62 | 289 | 69 | 57 | 82.6087 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 35.8337 | 23.4568 | 75.8621 | 81.8750 | 19 | 62 | 22 | 7 | 7 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | * | het | 99.2490 | 99.4651 | 99.0338 | 63.3339 | 11530 | 62 | 11480 | 112 | 67 | 59.8214 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.6974 | 88.3019 | 99.7951 | 47.9744 | 468 | 62 | 487 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.3107 | 99.0992 | 99.5231 | 80.1218 | 6821 | 62 | 6887 | 33 | 15 | 45.4545 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9346 | 99.2616 | 98.6098 | 64.3360 | 8334 | 62 | 8299 | 117 | 105 | 89.7436 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.2560 | 99.0686 | 99.4441 | 78.7870 | 6595 | 62 | 6619 | 37 | 15 | 40.5405 | |
| cchapple-custom | SNP | ti | map_l250_m2_e0 | homalt | 98.1670 | 96.4551 | 99.9407 | 84.8332 | 1687 | 62 | 1686 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e1 | * | 97.2808 | 96.8025 | 97.7639 | 88.7174 | 1877 | 62 | 1880 | 43 | 6 | 13.9535 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.6705 | 61.2500 | 86.3636 | 81.0017 | 98 | 62 | 95 | 15 | 4 | 26.6667 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.5989 | 91.3889 | 95.9184 | 85.0610 | 658 | 62 | 658 | 28 | 8 | 28.5714 | |
| egarrison-hhga | SNP | tv | map_l150_m0_e0 | het | 98.6520 | 97.8192 | 99.4991 | 79.4500 | 2781 | 62 | 2781 | 14 | 5 | 35.7143 | |
| dgrover-gatk | SNP | ti | map_l150_m0_e0 | het | 98.5705 | 98.7836 | 98.3584 | 84.6267 | 5035 | 62 | 5033 | 84 | 15 | 17.8571 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.7790 | 63.3136 | 64.2512 | 66.5049 | 107 | 62 | 133 | 74 | 74 | 100.0000 | |
| egarrison-hhga | INDEL | * | map_siren | hetalt | 84.9102 | 75.3036 | 97.3262 | 88.3489 | 186 | 61 | 182 | 5 | 4 | 80.0000 | |