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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54301-54350 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.2878 | 89.5161 | 97.3913 | 86.9615 | 111 | 13 | 112 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | * | map_l250_m2_e0 | homalt | 97.3913 | 97.3913 | 97.3913 | 95.3176 | 112 | 3 | 112 | 3 | 1 | 33.3333 | |
| hfeng-pmm2 | INDEL | I16_PLUS | HG002compoundhet | * | 94.8024 | 92.3472 | 97.3917 | 52.6892 | 1979 | 164 | 1979 | 53 | 52 | 98.1132 | |
| ndellapenna-hhga | INDEL | * | map_l125_m0_e0 | * | 97.2788 | 97.1655 | 97.3923 | 98.8463 | 857 | 25 | 859 | 23 | 6 | 26.0870 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.2043 | 97.0166 | 97.3928 | 54.4393 | 10959 | 337 | 10945 | 293 | 257 | 87.7133 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.0894 | 75.5459 | 97.3929 | 69.1734 | 519 | 168 | 523 | 14 | 12 | 85.7143 | |
| gduggal-snapfb | SNP | * | map_siren | het | 98.1134 | 98.8438 | 97.3936 | 60.3479 | 89939 | 1052 | 89942 | 2407 | 760 | 31.5746 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.5569 | 99.7479 | 97.3939 | 48.1612 | 6727 | 17 | 6727 | 180 | 3 | 1.6667 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.8912 | 73.6757 | 97.3956 | 82.4238 | 35564 | 12707 | 35564 | 951 | 276 | 29.0221 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.5047 | 97.6139 | 97.3958 | 75.5476 | 900 | 22 | 935 | 25 | 7 | 28.0000 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | homalt | 97.1429 | 96.8912 | 97.3958 | 93.0207 | 187 | 6 | 187 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0574 | 96.7213 | 97.3958 | 75.1053 | 472 | 16 | 748 | 20 | 14 | 70.0000 | |
| ckim-gatk | INDEL | * | map_siren | * | 98.0865 | 98.7854 | 97.3974 | 85.2125 | 7320 | 90 | 7335 | 196 | 24 | 12.2449 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m0_e0 | het | 97.5398 | 97.6812 | 97.3988 | 87.9694 | 337 | 8 | 337 | 9 | 2 | 22.2222 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1904 | 98.9943 | 97.3994 | 67.4787 | 14470 | 147 | 14082 | 376 | 350 | 93.0851 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | het | 97.1219 | 96.8458 | 97.3995 | 54.6381 | 829 | 27 | 824 | 22 | 16 | 72.7273 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.9273 | 92.5764 | 97.4006 | 82.2668 | 636 | 51 | 637 | 17 | 11 | 64.7059 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m1_e0 | * | 98.2056 | 99.0237 | 97.4008 | 89.1607 | 710 | 7 | 712 | 19 | 4 | 21.0526 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.6834 | 100.0000 | 97.4010 | 66.6941 | 786 | 0 | 787 | 21 | 18 | 85.7143 | |
| gduggal-bwafb | SNP | ti | map_l250_m1_e0 | het | 97.3192 | 97.2372 | 97.4013 | 90.0480 | 2886 | 82 | 2886 | 77 | 22 | 28.5714 | |
| ghariani-varprowl | SNP | * | map_siren | het | 98.3861 | 99.3911 | 97.4013 | 64.9618 | 90437 | 554 | 90440 | 2413 | 303 | 12.5570 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| gduggal-bwafb | INDEL | D6_15 | map_l100_m2_e0 | * | 89.1561 | 82.1970 | 97.4026 | 85.7934 | 217 | 47 | 225 | 6 | 3 | 50.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5976 | 99.8224 | 97.4026 | 57.6846 | 2248 | 4 | 2250 | 60 | 49 | 81.6667 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5545 | 99.7340 | 97.4026 | 53.7630 | 1125 | 3 | 1125 | 30 | 23 | 76.6667 | |
| ltrigg-rtg2 | INDEL | * | tech_badpromoters | * | 98.0392 | 98.6842 | 97.4026 | 50.0000 | 75 | 1 | 75 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 87.4735 | 79.3814 | 97.4026 | 83.5118 | 77 | 20 | 75 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.5670 | 91.8919 | 97.4026 | 86.9492 | 68 | 6 | 75 | 2 | 2 | 100.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.5516 | 99.7271 | 97.4035 | 50.4781 | 1462 | 4 | 1463 | 39 | 31 | 79.4872 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.6230 | 99.8728 | 97.4042 | 72.7150 | 785 | 1 | 788 | 21 | 13 | 61.9048 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m0_e0 | * | 97.7938 | 98.1855 | 97.4052 | 89.6850 | 487 | 9 | 488 | 13 | 3 | 23.0769 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 77.1048 | 63.8066 | 97.4057 | 47.3945 | 409 | 232 | 413 | 11 | 11 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | * | homalt | 98.0267 | 98.6547 | 97.4067 | 67.1719 | 1540 | 21 | 1540 | 41 | 36 | 87.8049 | |
| eyeh-varpipe | INDEL | I6_15 | HG002compoundhet | hetalt | 42.7960 | 27.4218 | 97.4089 | 29.0841 | 2341 | 6196 | 2406 | 64 | 63 | 98.4375 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e1 | * | 96.8133 | 96.2247 | 97.4091 | 91.7742 | 2141 | 84 | 2143 | 57 | 8 | 14.0351 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.4258 | 95.4620 | 97.4092 | 41.9487 | 3492 | 166 | 3459 | 92 | 56 | 60.8696 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | het | 89.1406 | 82.1659 | 97.4093 | 86.6958 | 15683 | 3404 | 15679 | 417 | 41 | 9.8321 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.5323 | 89.9522 | 97.4093 | 74.9025 | 188 | 21 | 188 | 5 | 4 | 80.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2356 | 91.2621 | 97.4093 | 87.4594 | 188 | 18 | 188 | 5 | 2 | 40.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 97.4026 | 97.3958 | 97.4093 | 89.8634 | 187 | 5 | 188 | 5 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002complexvar | het | 96.6823 | 95.9660 | 97.4093 | 58.8413 | 2260 | 95 | 2256 | 60 | 55 | 91.6667 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.6898 | 94.0299 | 97.4093 | 80.1031 | 189 | 12 | 188 | 5 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.6672 | 99.9578 | 97.4095 | 54.3286 | 2369 | 1 | 2369 | 63 | 62 | 98.4127 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 89.8865 | 83.4416 | 97.4105 | 87.5446 | 1542 | 306 | 1768 | 47 | 35 | 74.4681 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5527 | 99.7211 | 97.4114 | 61.5908 | 715 | 2 | 715 | 19 | 18 | 94.7368 | |
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | * | 94.7676 | 92.2629 | 97.4120 | 66.1892 | 11400 | 956 | 11405 | 303 | 301 | 99.3399 | |
| bgallagher-sentieon | SNP | ti | map_l250_m1_e0 | het | 98.1612 | 98.9218 | 97.4121 | 90.4001 | 2936 | 32 | 2936 | 78 | 16 | 20.5128 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0092 | 98.6133 | 97.4125 | 67.2319 | 640 | 9 | 640 | 17 | 17 | 100.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7218 | 88.4618 | 97.4128 | 51.1450 | 15763 | 2056 | 30197 | 802 | 660 | 82.2943 | |
| bgallagher-sentieon | INDEL | * | map_l125_m1_e0 | het | 97.9174 | 98.4270 | 97.4132 | 88.3493 | 1314 | 21 | 1318 | 35 | 5 | 14.2857 | |