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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85401-85450 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e1 | homalt | 42.1053 | 26.6667 | 100.0000 | 82.8125 | 4 | 11 | 11 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l150_m0_e0 | homalt | 40.0000 | 25.0000 | 100.0000 | 96.2963 | 1 | 3 | 1 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l150_m1_e0 | homalt | 44.4444 | 28.5714 | 100.0000 | 86.9565 | 2 | 5 | 6 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l150_m2_e0 | homalt | 44.4444 | 28.5714 | 100.0000 | 88.0000 | 2 | 5 | 6 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l150_m2_e1 | homalt | 54.5455 | 37.5000 | 100.0000 | 88.4615 | 3 | 5 | 6 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | map_l250_m0_e0 | homalt | 0.0000 | 100.0000 | 0 | 1 | 0 | 0 | 0 | ||||
| gduggal-snapvard | INDEL | I6_15 | map_l250_m1_e0 | homalt | 0.0000 | 100.0000 | 0 | 3 | 0 | 0 | 0 | ||||
| gduggal-snapvard | INDEL | I6_15 | map_l250_m2_e0 | homalt | 0.0000 | 100.0000 | 0 | 3 | 0 | 0 | 0 | ||||
| gduggal-snapvard | INDEL | I6_15 | map_l250_m2_e1 | homalt | 0.0000 | 100.0000 | 0 | 3 | 0 | 0 | 0 | ||||
| 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 | INDEL | I6_15 | segdup | homalt | 43.3333 | 27.6596 | 100.0000 | 84.9206 | 13 | 34 | 19 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I6_15 | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | INDEL | I6_15 | tech_badpromoters | homalt | 50.0000 | 33.3333 | 100.0000 | 0.0000 | 1 | 2 | 1 | 0 | 0 | ||
| gduggal-snapvard | SNP | * | * | homalt | 99.4378 | 98.9468 | 99.9337 | 17.0443 | 1167733 | 12429 | 1158113 | 768 | 475 | 61.8490 | |
| gduggal-snapvard | SNP | * | HG002complexvar | homalt | 98.1658 | 96.5628 | 99.8230 | 18.7873 | 278656 | 9919 | 269038 | 477 | 269 | 56.3941 | |
| gduggal-snapvard | SNP | * | HG002compoundhet | homalt | 89.8866 | 82.8510 | 98.2279 | 37.1566 | 8933 | 1849 | 7594 | 137 | 100 | 72.9927 | |
| gduggal-snapvard | SNP | * | decoy | homalt | 0.0000 | 0.0000 | 100.0000 | 99.9931 | 0 | 0 | 2 | 0 | 0 | ||
| gduggal-snapvard | SNP | * | func_cds | homalt | 99.5466 | 99.1259 | 99.9709 | 21.8523 | 6918 | 61 | 6875 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.7991 | 95.5378 | 98.0941 | 72.6859 | 1670 | 78 | 1647 | 32 | 12 | 37.5000 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0062 | 96.7177 | 99.3296 | 54.4844 | 19536 | 663 | 19261 | 130 | 58 | 44.6154 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4271 | 97.3897 | 99.4869 | 56.2693 | 1567 | 42 | 1551 | 8 | 4 | 50.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.4705 | 97.6021 | 99.3545 | 52.3611 | 2198 | 54 | 2155 | 14 | 7 | 50.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.6458 | 97.9754 | 99.3253 | 54.0950 | 1355 | 28 | 1325 | 9 | 5 | 55.5556 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.9978 | 81.8182 | 82.1782 | 94.8258 | 90 | 20 | 83 | 18 | 6 | 33.3333 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.1125 | 83.1756 | 93.6725 | 88.6078 | 791 | 160 | 755 | 51 | 22 | 43.1373 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.9064 | 83.4507 | 95.1253 | 86.7650 | 711 | 141 | 683 | 35 | 18 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.1492 | 94.2273 | 98.1512 | 80.5335 | 3689 | 226 | 3610 | 68 | 32 | 47.0588 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5819 | 93.2562 | 98.0265 | 65.1478 | 3222 | 233 | 3179 | 64 | 22 | 34.3750 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 75.0000 | 80.0000 | 70.5882 | 97.4627 | 12 | 3 | 12 | 5 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0804 | 98.3246 | 99.8480 | 50.5717 | 5986 | 102 | 5913 | 9 | 5 | 55.5556 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3473 | 97.2572 | 99.4621 | 37.7380 | 6560 | 185 | 6472 | 35 | 18 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 60.8696 | 51.2195 | 75.0000 | 96.2617 | 21 | 20 | 21 | 7 | 2 | 28.5714 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.2185 | 96.7495 | 99.7328 | 29.9465 | 2649 | 89 | 2613 | 7 | 4 | 57.1429 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 100.0000 | 100.0000 | 100.0000 | 98.9796 | 2 | 0 | 1 | 0 | 0 | ||
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_triTR_gt200 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| gduggal-snapvard | SNP | * | map_l100_m0_e0 | homalt | 97.5410 | 95.5077 | 99.6627 | 63.7532 | 11098 | 522 | 10932 | 37 | 28 | 75.6757 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | homalt | 98.0408 | 96.3523 | 99.7895 | 60.4906 | 26018 | 985 | 25605 | 54 | 41 | 75.9259 | |
| ghariani-varprowl | INDEL | C6_15 | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||