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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1551-1600 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | tv | map_siren | * | 99.6255 | 99.6408 | 99.6103 | 59.7727 | 45765 | 165 | 45757 | 179 | 35 | 19.5531 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5770 | 82.0514 | 93.9006 | 76.3684 | 45646 | 9985 | 45754 | 2972 | 322 | 10.8345 | |
| raldana-dualsentieon | SNP | tv | map_siren | * | 99.5658 | 99.6081 | 99.5235 | 57.2670 | 45750 | 180 | 45742 | 219 | 8 | 3.6530 | |
| hfeng-pmm1 | SNP | tv | map_siren | * | 99.7188 | 99.5885 | 99.8494 | 56.2301 | 45741 | 189 | 45734 | 69 | 22 | 31.8841 | |
| jli-custom | SNP | tv | map_siren | * | 99.6133 | 99.5493 | 99.6773 | 55.0835 | 45723 | 207 | 45718 | 148 | 36 | 24.3243 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4371 | 99.0591 | 97.8229 | 71.0281 | 45272 | 430 | 45697 | 1017 | 32 | 3.1465 | |
| ckim-dragen | SNP | tv | map_siren | * | 98.9465 | 99.4753 | 98.4233 | 61.5086 | 45689 | 241 | 45694 | 732 | 69 | 9.4262 | |
| rpoplin-dv42 | SNP | tv | map_siren | * | 99.5468 | 99.4818 | 99.6119 | 56.8797 | 45692 | 238 | 45686 | 178 | 89 | 50.0000 | |
| gduggal-snapvard | SNP | ti | map_l100_m1_e0 | * | 95.0911 | 96.2467 | 93.9630 | 72.8656 | 46132 | 1799 | 45682 | 2935 | 278 | 9.4719 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8639 | 99.1992 | 98.5310 | 73.4964 | 45336 | 366 | 45676 | 681 | 66 | 9.6916 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8639 | 99.1992 | 98.5310 | 73.4964 | 45336 | 366 | 45676 | 681 | 66 | 9.6916 | |
| eyeh-varpipe | SNP | * | map_l125_m2_e1 | * | 98.7976 | 99.6949 | 97.9163 | 74.9861 | 47058 | 144 | 45676 | 972 | 38 | 3.9095 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | het | 99.0800 | 98.4181 | 99.7510 | 64.4052 | 45665 | 734 | 45667 | 114 | 41 | 35.9649 | |
| jlack-gatk | SNP | tv | map_siren | * | 97.3060 | 99.4187 | 95.2813 | 67.8334 | 45663 | 267 | 45655 | 2261 | 122 | 5.3958 | |
| gduggal-bwafb | SNP | tv | map_siren | * | 99.0828 | 99.3686 | 98.7986 | 61.3728 | 45640 | 290 | 45640 | 555 | 80 | 14.4144 | |
| egarrison-hhga | SNP | tv | map_siren | * | 99.6246 | 99.3686 | 99.8818 | 55.8072 | 45640 | 290 | 45640 | 54 | 25 | 46.2963 | |
| ckim-gatk | INDEL | * | HG002complexvar | het | 99.6665 | 99.5780 | 99.7552 | 57.8728 | 46017 | 195 | 45636 | 112 | 64 | 57.1429 | |
| dgrover-gatk | INDEL | * | HG002complexvar | het | 99.6862 | 99.5586 | 99.8141 | 57.9282 | 46008 | 204 | 45634 | 85 | 51 | 60.0000 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | het | 99.6698 | 99.5477 | 99.7922 | 57.6447 | 46003 | 209 | 45633 | 95 | 61 | 64.2105 | |
| ltrigg-rtg1 | SNP | * | map_l100_m2_e0 | het | 98.9994 | 98.3060 | 99.7027 | 57.0672 | 45613 | 786 | 45611 | 136 | 12 | 8.8235 | |
| ghariani-varprowl | SNP | tv | map_siren | * | 98.2281 | 99.2140 | 97.2616 | 65.3754 | 45569 | 361 | 45570 | 1283 | 183 | 14.2634 | |
| ltrigg-rtg1 | SNP | tv | map_siren | * | 99.4402 | 99.2053 | 99.6762 | 52.0914 | 45565 | 365 | 45564 | 148 | 13 | 8.7838 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | het | 97.2954 | 98.1875 | 96.4194 | 69.0247 | 45558 | 841 | 45562 | 1692 | 659 | 38.9480 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | het | 99.5676 | 99.3876 | 99.7482 | 58.0104 | 45929 | 283 | 45560 | 115 | 73 | 63.4783 | |
| rpoplin-dv42 | INDEL | * | HG002complexvar | het | 98.9928 | 98.7730 | 99.2136 | 57.1040 | 45645 | 567 | 45545 | 361 | 319 | 88.3657 | |
| ndellapenna-hhga | SNP | tv | map_siren | * | 99.4997 | 99.1596 | 99.8422 | 55.1910 | 45544 | 386 | 45544 | 72 | 30 | 41.6667 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.3394 | 98.7572 | 97.9251 | 69.6626 | 45134 | 568 | 45544 | 965 | 45 | 4.6632 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.3394 | 98.7572 | 97.9251 | 69.6626 | 45134 | 568 | 45544 | 965 | 45 | 4.6632 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e1 | het | 97.3347 | 97.1001 | 97.5704 | 74.0696 | 45538 | 1360 | 45540 | 1134 | 265 | 23.3686 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.3617 | 99.6215 | 99.1032 | 69.4732 | 45529 | 173 | 45529 | 412 | 31 | 7.5243 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.3617 | 99.6215 | 99.1032 | 69.4732 | 45529 | 173 | 45529 | 412 | 31 | 7.5243 | |
| jlack-gatk | INDEL | * | HG002complexvar | het | 99.3807 | 99.2967 | 99.4647 | 57.6016 | 45887 | 325 | 45527 | 245 | 124 | 50.6122 | |
| ckim-vqsr | INDEL | * | HG002complexvar | het | 99.5556 | 99.3270 | 99.7852 | 57.9433 | 45901 | 311 | 45518 | 98 | 61 | 62.2449 | |
| ltrigg-rtg2 | SNP | tv | map_siren | * | 99.4071 | 99.1030 | 99.7130 | 49.8109 | 45518 | 412 | 45517 | 131 | 9 | 6.8702 | |
| astatham-gatk | INDEL | * | HG002complexvar | het | 99.5588 | 99.3119 | 99.8070 | 57.7885 | 45894 | 318 | 45516 | 88 | 55 | 62.5000 | |
| gduggal-bwavard | SNP | * | map_l125_m2_e1 | * | 95.7732 | 97.6865 | 93.9333 | 79.9451 | 46110 | 1092 | 45506 | 2939 | 183 | 6.2266 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.6169 | 99.5602 | 99.6736 | 72.0020 | 45501 | 201 | 45497 | 149 | 51 | 34.2282 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.6169 | 99.5602 | 99.6736 | 72.0020 | 45501 | 201 | 45497 | 149 | 51 | 34.2282 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e0 | het | 98.8752 | 98.0452 | 99.7194 | 53.1503 | 45492 | 907 | 45491 | 128 | 8 | 6.2500 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | * | 72.9339 | 60.8681 | 90.9660 | 55.6863 | 45491 | 29246 | 45483 | 4517 | 3972 | 87.9345 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4424 | 99.5121 | 99.3729 | 70.5814 | 45479 | 223 | 45479 | 287 | 31 | 10.8014 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4424 | 99.5121 | 99.3729 | 70.5814 | 45479 | 223 | 45479 | 287 | 31 | 10.8014 | |
| cchapple-custom | SNP | * | map_l100_m2_e0 | het | 96.8591 | 97.8857 | 95.8537 | 73.9797 | 45418 | 981 | 45473 | 1967 | 406 | 20.6406 | |
| ckim-dragen | INDEL | * | HG002complexvar | het | 99.6184 | 99.4569 | 99.7805 | 57.4574 | 45961 | 251 | 45458 | 100 | 50 | 50.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5215 | 99.3655 | 97.6917 | 75.5520 | 45412 | 290 | 45412 | 1073 | 63 | 5.8714 | |