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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66101-66150 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 38.0210 | 46.1837 | 32.3103 | 83.9205 | 357 | 416 | 379 | 794 | 8 | 1.0076 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 79.0248 | 67.8719 | 94.5637 | 68.1984 | 657 | 311 | 661 | 38 | 8 | 21.0526 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | * | 82.4097 | 78.1927 | 87.1074 | 91.8447 | 1047 | 292 | 1054 | 156 | 8 | 5.1282 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | * | 82.2996 | 77.9971 | 87.1046 | 92.4495 | 1067 | 301 | 1074 | 159 | 8 | 5.0315 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e1 | * | 82.3761 | 78.0645 | 87.1917 | 92.5152 | 1089 | 306 | 1096 | 161 | 8 | 4.9689 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 25.0503 | 16.2037 | 55.1724 | 73.1481 | 35 | 181 | 32 | 26 | 8 | 30.7692 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 86.6794 | 93.1497 | 81.0496 | 83.5702 | 2502 | 184 | 2502 | 585 | 8 | 1.3675 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 50.0000 | 39.0909 | 69.3548 | 97.6108 | 43 | 67 | 43 | 19 | 8 | 42.1053 | |
| gduggal-snapplat | SNP | * | map_l100_m1_e0 | hetalt | 84.7059 | 87.8049 | 81.8182 | 83.2700 | 36 | 5 | 36 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m2_e0 | hetalt | 85.0575 | 88.0952 | 82.2222 | 85.0993 | 37 | 5 | 37 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m2_e1 | hetalt | 85.3933 | 88.3721 | 82.6087 | 84.8684 | 38 | 5 | 38 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l125_m0_e0 | homalt | 91.2357 | 83.9839 | 99.8583 | 72.7044 | 5637 | 1075 | 5637 | 8 | 8 | 100.0000 | |
| gduggal-snapvard | SNP | tv | map_l125_m1_e0 | homalt | 98.0991 | 96.4505 | 99.8050 | 66.5043 | 5652 | 208 | 5629 | 11 | 8 | 72.7273 | |
| ghariani-varprowl | INDEL | * | map_l100_m1_e0 | homalt | 94.7855 | 91.8500 | 97.9149 | 78.8807 | 1127 | 100 | 1127 | 24 | 8 | 33.3333 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e0 | homalt | 94.8057 | 91.9112 | 97.8885 | 80.1409 | 1159 | 102 | 1159 | 25 | 8 | 32.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | segdup | * | 80.9978 | 79.3103 | 82.7586 | 95.3226 | 46 | 12 | 48 | 10 | 8 | 80.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | segdup | het | 87.3006 | 97.2973 | 79.1667 | 95.5679 | 36 | 1 | 38 | 10 | 8 | 80.0000 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.7334 | 83.3333 | 97.1983 | 70.7071 | 455 | 91 | 451 | 13 | 8 | 61.5385 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 71.4286 | 59.8086 | 88.6525 | 84.5902 | 125 | 84 | 125 | 16 | 8 | 50.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 48.6672 | 32.4541 | 97.2509 | 55.2995 | 283 | 589 | 283 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | hetalt | 78.6021 | 65.0263 | 99.3421 | 43.5644 | 1361 | 732 | 1359 | 9 | 8 | 88.8889 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 71.6574 | 56.6038 | 97.6190 | 68.8312 | 330 | 253 | 328 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 66.7081 | 53.2787 | 89.1892 | 86.8093 | 65 | 57 | 66 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 65.7233 | 50.4831 | 94.1441 | 78.8168 | 209 | 205 | 209 | 13 | 8 | 61.5385 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.7158 | 58.9124 | 85.3712 | 87.1924 | 390 | 272 | 391 | 67 | 8 | 11.9403 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.9523 | 50.2994 | 91.6515 | 76.9456 | 504 | 498 | 505 | 46 | 8 | 17.3913 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 71.9347 | 56.7912 | 98.0910 | 82.9452 | 669 | 509 | 668 | 13 | 8 | 61.5385 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 74.0031 | 64.7102 | 86.4125 | 82.4649 | 882 | 481 | 884 | 139 | 8 | 5.7554 | |
| gduggal-bwaplat | INDEL | I1_5 | map_siren | * | 85.1433 | 74.4759 | 99.3775 | 89.0629 | 2238 | 767 | 2235 | 14 | 8 | 57.1429 | |
| gduggal-bwaplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.8694 | 87.8316 | 96.2963 | 86.2286 | 2649 | 367 | 2652 | 102 | 8 | 7.8431 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 90.7855 | 83.8319 | 98.9970 | 73.1888 | 3251 | 627 | 3257 | 33 | 8 | 24.2424 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 90.6304 | 83.9615 | 98.4500 | 76.1644 | 2094 | 400 | 2096 | 33 | 8 | 24.2424 | |
| gduggal-bwaplat | SNP | * | segdup | homalt | 98.8522 | 97.8032 | 99.9239 | 88.9336 | 10507 | 236 | 10502 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 92.5642 | 86.3306 | 99.7681 | 43.5629 | 3442 | 545 | 3442 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 64.8336 | 51.1501 | 88.5122 | 95.7847 | 467 | 446 | 470 | 61 | 8 | 13.1148 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 73.2187 | 58.7771 | 97.0684 | 92.5467 | 298 | 209 | 298 | 9 | 8 | 88.8889 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.7476 | 75.5007 | 99.2126 | 87.1486 | 1131 | 367 | 1134 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 80.3922 | 94.9153 | 0 | 0 | 41 | 10 | 8 | 80.0000 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 88.4615 | 0 | 0 | 0 | 12 | 8 | 66.6667 | ||
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 63.0435 | 92.8903 | 0 | 0 | 29 | 17 | 8 | 47.0588 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 81.1111 | 0 | 0 | 0 | 17 | 8 | 47.0588 | ||
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 58.0645 | 69.2308 | 50.0000 | 25.0000 | 9 | 4 | 9 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 65.8938 | 49.7835 | 97.4194 | 62.0098 | 230 | 232 | 302 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m1_e0 | het | 98.2562 | 98.1803 | 98.3322 | 81.6008 | 1187 | 22 | 1415 | 24 | 8 | 33.3333 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e0 | het | 98.2510 | 98.1688 | 98.3333 | 82.0789 | 1233 | 23 | 1475 | 25 | 8 | 32.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e1 | het | 98.2268 | 98.1073 | 98.3466 | 82.2535 | 1244 | 24 | 1487 | 25 | 8 | 32.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m0_e0 | * | 97.0408 | 97.9239 | 96.1735 | 91.2206 | 283 | 6 | 377 | 15 | 8 | 53.3333 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m2_e1 | homalt | 97.7568 | 97.9839 | 97.5309 | 89.9783 | 243 | 5 | 316 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m1_e0 | het | 93.2430 | 96.8750 | 89.8734 | 86.2609 | 62 | 2 | 71 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m1_e0 | homalt | 82.6646 | 82.3529 | 82.9787 | 89.7826 | 28 | 6 | 39 | 8 | 8 | 100.0000 | |