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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23851-23900 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2379 | 97.0149 | 97.4619 | 86.3856 | 195 | 6 | 192 | 5 | 1 | 20.0000 | |
| jli-custom | INDEL | D6_15 | map_l100_m2_e1 | homalt | 98.4848 | 97.0149 | 100.0000 | 85.0575 | 65 | 2 | 65 | 0 | 0 | ||
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5891 | 97.0144 | 98.1706 | 67.3997 | 29570 | 910 | 29515 | 550 | 132 | 24.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5891 | 97.0144 | 98.1706 | 67.3997 | 29570 | 910 | 29515 | 550 | 132 | 24.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_siren | het | 95.3594 | 97.0136 | 93.7606 | 83.6842 | 2209 | 68 | 2209 | 147 | 108 | 73.4694 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m1_e0 | * | 97.2897 | 97.0127 | 97.5684 | 82.3852 | 1299 | 40 | 1284 | 32 | 10 | 31.2500 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.3923 | 97.0109 | 99.8136 | 86.7219 | 1071 | 33 | 1071 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3477 | 97.0107 | 99.7221 | 77.9349 | 6458 | 199 | 6459 | 18 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 81.2239 | 97.0100 | 69.8565 | 48.4904 | 584 | 18 | 584 | 252 | 251 | 99.6032 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.4820 | 97.0093 | 100.0000 | 73.5592 | 519 | 16 | 523 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2046 | 97.0093 | 99.4297 | 73.5811 | 519 | 16 | 523 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2046 | 97.0093 | 99.4297 | 73.6076 | 519 | 16 | 523 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e1 | * | 98.0955 | 97.0088 | 99.2068 | 77.5974 | 1881 | 58 | 1876 | 15 | 2 | 13.3333 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e0 | * | 94.5205 | 97.0079 | 92.1574 | 76.1726 | 24284 | 749 | 24195 | 2059 | 151 | 7.3337 | |
| gduggal-bwaplat | SNP | ti | HG002complexvar | homalt | 98.4485 | 97.0077 | 99.9328 | 19.1570 | 187674 | 5789 | 187425 | 126 | 109 | 86.5079 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.0651 | 97.0076 | 99.1459 | 33.5614 | 3955 | 122 | 3947 | 34 | 24 | 70.5882 | |
| ltrigg-rtg2 | INDEL | I1_5 | * | hetalt | 98.3546 | 97.0076 | 99.7395 | 72.4903 | 10860 | 335 | 11105 | 29 | 29 | 100.0000 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e1 | * | 96.9532 | 97.0065 | 96.9000 | 74.6410 | 45789 | 1413 | 45793 | 1465 | 623 | 42.5256 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.0720 | 97.0065 | 97.1375 | 69.1696 | 2074 | 64 | 2070 | 61 | 54 | 88.5246 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 91.3897 | 97.0060 | 86.3881 | 76.4855 | 1296 | 40 | 1282 | 202 | 4 | 1.9802 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e1 | * | 94.5392 | 97.0059 | 92.1948 | 76.2078 | 24526 | 757 | 24427 | 2068 | 154 | 7.4468 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m1_e0 | het | 98.3075 | 97.0055 | 99.6450 | 62.4882 | 6738 | 208 | 6736 | 24 | 4 | 16.6667 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e1 | * | 98.3031 | 97.0055 | 99.6358 | 87.9552 | 4924 | 152 | 4924 | 18 | 9 | 50.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3151 | 97.0053 | 97.6268 | 51.2109 | 1652 | 51 | 5389 | 131 | 84 | 64.1221 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.7665 | 97.0048 | 92.6291 | 69.2144 | 26849 | 829 | 26579 | 2115 | 167 | 7.8960 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e0 | * | 98.3102 | 97.0048 | 99.6513 | 87.8762 | 4858 | 150 | 4858 | 17 | 9 | 52.9412 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.6456 | 97.0042 | 90.5118 | 51.1256 | 2299 | 71 | 2299 | 241 | 85 | 35.2697 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.2860 | 97.0041 | 97.5694 | 83.2558 | 939 | 29 | 843 | 21 | 16 | 76.1905 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.2211 | 97.0040 | 99.4690 | 43.1148 | 13372 | 413 | 13301 | 71 | 68 | 95.7746 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1202 | 97.0035 | 95.2529 | 60.1354 | 53964 | 1667 | 55240 | 2753 | 1338 | 48.6015 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e0 | * | 97.3100 | 97.0029 | 97.6190 | 83.7387 | 1327 | 41 | 1312 | 32 | 10 | 31.2500 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | hetalt | 98.4111 | 97.0028 | 99.8609 | 64.1248 | 10842 | 335 | 10768 | 15 | 15 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9616 | 97.0020 | 98.9403 | 47.2355 | 10095 | 312 | 10084 | 108 | 100 | 92.5926 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.6073 | 97.0006 | 94.2535 | 58.3072 | 1714 | 53 | 1755 | 107 | 94 | 87.8505 | |
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.3756 | 97.0003 | 99.7905 | 79.9603 | 10477 | 324 | 10478 | 22 | 4 | 18.1818 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | * | 94.4568 | 97.0001 | 92.0434 | 74.6951 | 23766 | 735 | 23680 | 2047 | 149 | 7.2789 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4772 | 97.0000 | 100.0000 | 56.4626 | 194 | 6 | 192 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4772 | 97.0000 | 100.0000 | 59.4937 | 194 | 6 | 192 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9112 | 96.9995 | 98.8403 | 60.5859 | 1875 | 58 | 1875 | 22 | 21 | 95.4545 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4102 | 96.9993 | 99.8628 | 49.7674 | 5754 | 178 | 5824 | 8 | 6 | 75.0000 | |
| ckim-dragen | SNP | * | map_l250_m2_e1 | het | 96.3314 | 96.9985 | 95.6733 | 91.4307 | 5106 | 158 | 5108 | 231 | 16 | 6.9264 | |
| ciseli-custom | SNP | * | HG002complexvar | * | 95.9712 | 96.9985 | 94.9655 | 20.7202 | 731742 | 22643 | 718679 | 38100 | 8358 | 21.9370 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.4013 | 96.9970 | 97.8091 | 88.3245 | 646 | 20 | 625 | 14 | 5 | 35.7143 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.4013 | 96.9970 | 97.8091 | 88.3245 | 646 | 20 | 625 | 14 | 5 | 35.7143 | |
| jlack-gatk | INDEL | * | map_l250_m2_e1 | * | 90.7303 | 96.9970 | 85.2243 | 97.1042 | 323 | 10 | 323 | 56 | 4 | 7.1429 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.3469 | 96.9970 | 97.6994 | 59.7282 | 1292 | 40 | 1274 | 30 | 17 | 56.6667 | |