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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
50901-50950 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.5891 | 93.3138 | 95.8997 | 71.5881 | 60123 | 4308 | 60061 | 2568 | 2492 | 97.0405 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e0 | * | 96.9371 | 97.9962 | 95.9006 | 89.1934 | 3619 | 74 | 3626 | 155 | 21 | 13.5484 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.6620 | 99.4893 | 95.9007 | 73.2635 | 11493 | 59 | 11510 | 492 | 263 | 53.4553 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.6620 | 99.4893 | 95.9007 | 73.2635 | 11493 | 59 | 11510 | 492 | 263 | 53.4553 | |
| egarrison-hhga | INDEL | I16_PLUS | * | * | 92.9799 | 90.2305 | 95.9020 | 62.0328 | 5754 | 623 | 5757 | 246 | 165 | 67.0732 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.4281 | 99.0035 | 95.9022 | 49.9948 | 4570 | 46 | 4587 | 196 | 1 | 0.5102 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6491 | 95.3947 | 95.9048 | 73.2348 | 2030 | 98 | 2014 | 86 | 77 | 89.5349 | |
| gduggal-snapfb | INDEL | D1_5 | HG002complexvar | homalt | 96.3093 | 96.7164 | 95.9056 | 58.3612 | 10250 | 348 | 10283 | 439 | 309 | 70.3872 | |
| ltrigg-rtg1 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 95.9064 | 95.2710 | 0 | 0 | 164 | 7 | 2 | 28.5714 | |
| ltrigg-rtg1 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 95.9064 | 95.2710 | 0 | 0 | 164 | 7 | 2 | 28.5714 | |
| egarrison-hhga | INDEL | * | map_l150_m0_e0 | het | 95.7536 | 95.6012 | 95.9064 | 92.1703 | 326 | 15 | 328 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8021 | 99.7736 | 95.9069 | 61.4948 | 11458 | 26 | 11458 | 489 | 478 | 97.7505 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | het | 87.4351 | 80.3377 | 95.9080 | 87.2955 | 8135 | 1991 | 8133 | 347 | 14 | 4.0346 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e1 | het | 97.2811 | 98.6938 | 95.9083 | 82.6594 | 12845 | 170 | 12845 | 548 | 124 | 22.6277 | |
| ciseli-custom | SNP | * | * | het | 97.1375 | 98.3979 | 95.9090 | 22.9747 | 1843584 | 30017 | 1837235 | 78367 | 939 | 1.1982 | |
| eyeh-varpipe | INDEL | D1_5 | map_l250_m1_e0 | * | 96.7770 | 97.6608 | 95.9091 | 94.9039 | 167 | 4 | 211 | 9 | 4 | 44.4444 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.9772 | 98.0684 | 95.9100 | 75.5337 | 21476 | 423 | 21433 | 914 | 898 | 98.2495 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 95.1872 | 94.4745 | 95.9108 | 49.8134 | 872 | 51 | 258 | 11 | 11 | 100.0000 | |
| ckim-dragen | INDEL | * | map_l150_m2_e1 | * | 96.1137 | 96.3169 | 95.9113 | 91.3208 | 1386 | 53 | 1384 | 59 | 11 | 18.6441 | |
| jpowers-varprowl | SNP | tv | map_l125_m0_e0 | * | 95.8974 | 95.8830 | 95.9119 | 81.8721 | 6358 | 273 | 6358 | 271 | 70 | 25.8303 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.9832 | 96.0537 | 95.9128 | 70.7498 | 4576 | 188 | 4576 | 195 | 106 | 54.3590 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4934 | 99.1237 | 95.9157 | 59.7456 | 3733 | 33 | 3734 | 159 | 146 | 91.8239 | |
| jlack-gatk | SNP | ti | map_l100_m1_e0 | * | 97.4794 | 99.0945 | 95.9161 | 72.9428 | 47497 | 434 | 47490 | 2022 | 193 | 9.5450 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.5233 | 95.1335 | 95.9163 | 58.0490 | 2815 | 144 | 2842 | 121 | 62 | 51.2397 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 54.2056 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | map_l150_m2_e1 | het | 97.9167 | 100.0000 | 95.9184 | 93.9581 | 47 | 0 | 47 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.7366 | 95.5556 | 95.9184 | 83.9869 | 43 | 2 | 47 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l150_m2_e1 | het | 97.9167 | 100.0000 | 95.9184 | 93.8596 | 47 | 0 | 47 | 2 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | segdup | * | 96.8855 | 97.8723 | 95.9184 | 93.9431 | 46 | 1 | 47 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l150_m2_e1 | het | 97.9167 | 100.0000 | 95.9184 | 95.5128 | 47 | 0 | 47 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | ti | map_siren | hetalt | 88.6792 | 82.4561 | 95.9184 | 81.0078 | 47 | 10 | 47 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | map_l100_m0_e0 | * | 95.0386 | 94.1748 | 95.9184 | 83.9607 | 97 | 6 | 94 | 4 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l150_m2_e1 | het | 97.9167 | 100.0000 | 95.9184 | 93.8826 | 47 | 0 | 47 | 2 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 80.7087 | 45 | 2 | 47 | 2 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 54.6296 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 79.5833 | 45 | 2 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 80.1619 | 45 | 2 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 95.8314 | 95.7447 | 95.9184 | 80.0813 | 45 | 2 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 49.4845 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| 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 | |
| ckim-vqsr | INDEL | I16_PLUS | map_siren | het | 95.9184 | 95.9184 | 95.9184 | 92.9900 | 47 | 2 | 47 | 2 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 54.6296 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 22.8155 | 12.9477 | 95.9184 | 63.1579 | 47 | 316 | 47 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 50.5051 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.8070 | 99.7711 | 95.9189 | 66.2738 | 3922 | 9 | 3925 | 167 | 16 | 9.5808 | |
| gduggal-snapfb | SNP | tv | map_l100_m0_e0 | * | 96.3071 | 96.6979 | 95.9195 | 73.9602 | 10718 | 366 | 10719 | 456 | 169 | 37.0614 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | homalt | 95.8338 | 95.7466 | 95.9213 | 42.3182 | 12876 | 572 | 12817 | 545 | 363 | 66.6055 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.7416 | 95.5607 | 95.9231 | 39.1360 | 4542 | 211 | 4541 | 193 | 74 | 38.3420 | |
| gduggal-bwafb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 90.6109 | 85.8533 | 95.9267 | 79.8715 | 13236 | 2181 | 4239 | 180 | 178 | 98.8889 | |