PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59201-59250 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | I6_15 | * | homalt | 96.6294 | 99.7115 | 93.7321 | 54.6498 | 6221 | 18 | 6221 | 416 | 414 | 99.5192 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8713 | 99.8218 | 99.9208 | 48.8376 | 10084 | 18 | 10093 | 8 | 8 | 100.0000 | |
| cchapple-custom | INDEL | * | map_l100_m0_e0 | homalt | 97.3258 | 96.4637 | 98.2036 | 82.8248 | 491 | 18 | 492 | 9 | 5 | 55.5556 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.4362 | 95.5112 | 97.3793 | 65.7857 | 383 | 18 | 706 | 19 | 18 | 94.7368 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m1_e0 | * | 79.8809 | 79.3103 | 80.4598 | 91.6985 | 69 | 18 | 70 | 17 | 9 | 52.9412 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 95.6204 | 0.0000 | 0.0000 | 393 | 18 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.5000 | 95.8716 | 99.1848 | 78.2549 | 418 | 18 | 1095 | 9 | 5 | 55.5556 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.6731 | 91.7051 | 100.0000 | 35.4740 | 199 | 18 | 211 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.9984 | 97.5741 | 98.4263 | 73.5027 | 724 | 18 | 688 | 11 | 5 | 45.4545 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.1997 | 99.7848 | 94.7452 | 59.6307 | 8348 | 18 | 8348 | 463 | 461 | 99.5680 | |
| ckim-dragen | INDEL | * | map_l100_m1_e0 | homalt | 98.5318 | 98.5330 | 98.5306 | 83.5835 | 1209 | 18 | 1207 | 18 | 10 | 55.5556 | |
| ckim-dragen | INDEL | * | map_l100_m2_e0 | homalt | 98.5323 | 98.5726 | 98.4921 | 84.5872 | 1243 | 18 | 1241 | 19 | 10 | 52.6316 | |
| ckim-dragen | INDEL | * | map_l100_m2_e1 | homalt | 98.5552 | 98.5948 | 98.5156 | 84.6468 | 1263 | 18 | 1261 | 19 | 10 | 52.6316 | |
| ckim-dragen | INDEL | * | map_siren | hetalt | 96.2185 | 92.7126 | 100.0000 | 86.2007 | 229 | 18 | 231 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | HG002complexvar | het | 98.4311 | 98.3740 | 98.4884 | 69.6006 | 1089 | 18 | 847 | 13 | 2 | 15.3846 | |
| gduggal-snapplat | INDEL | D16_PLUS | map_l150_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D1_5 | func_cds | het | 81.7516 | 78.8235 | 84.9057 | 60.5948 | 67 | 18 | 90 | 16 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m1_e0 | homalt | 81.2500 | 68.4211 | 100.0000 | 96.5570 | 39 | 18 | 45 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e0 | homalt | 82.3529 | 70.0000 | 100.0000 | 96.7807 | 42 | 18 | 48 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e1 | homalt | 82.3529 | 70.0000 | 100.0000 | 96.8545 | 42 | 18 | 48 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 10.0000 | 5.2632 | 100.0000 | 98.9583 | 1 | 18 | 1 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 18.1818 | 10.0000 | 100.0000 | 98.5507 | 2 | 18 | 2 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e1 | homalt | 55.0000 | 37.9310 | 100.0000 | 94.3089 | 11 | 18 | 7 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | map_l100_m1_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | map_l100_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 25.0000 | 33.3333 | 20.0000 | 98.9024 | 9 | 18 | 9 | 36 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 5.2632 | 0.0000 | 0.0000 | 1 | 18 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D16_PLUS | map_siren | homalt | 64.0000 | 47.0588 | 100.0000 | 97.5309 | 16 | 18 | 16 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | map_l150_m2_e0 | homalt | 94.9153 | 92.5620 | 97.3913 | 85.7232 | 224 | 18 | 224 | 6 | 1 | 16.6667 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m1_e0 | homalt | 83.6364 | 71.8750 | 100.0000 | 80.8333 | 46 | 18 | 46 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | map_l100_m2_e0 | homalt | 83.9286 | 72.3077 | 100.0000 | 82.0611 | 47 | 18 | 47 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.4085 | 98.5294 | 87.0036 | 79.8311 | 1206 | 18 | 1205 | 180 | 12 | 6.6667 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.5028 | 99.3917 | 79.7641 | 72.5419 | 2941 | 18 | 2976 | 755 | 16 | 2.1192 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | hetalt | 34.1880 | 21.7391 | 80.0000 | 99.4253 | 5 | 18 | 4 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I1_5 | map_l150_m2_e1 | homalt | 94.7029 | 91.1765 | 98.5130 | 83.5474 | 186 | 18 | 265 | 4 | 2 | 50.0000 | |
| gduggal-snapfb | INDEL | D16_PLUS | map_l150_m2_e1 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 74.6404 | 61.7021 | 94.4444 | 94.7674 | 29 | 18 | 17 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 75.3138 | 62.5000 | 94.7368 | 94.7368 | 30 | 18 | 18 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 38.8186 | 25.0000 | 86.7925 | 22.0588 | 6 | 18 | 46 | 7 | 7 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m2_e1 | homalt | 81.6667 | 73.1343 | 92.4528 | 88.7712 | 49 | 18 | 49 | 4 | 4 | 100.0000 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I16_PLUS | map_l100_m1_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I16_PLUS | map_l100_m2_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I16_PLUS | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 18 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9242 | 94.4785 | 91.4201 | 83.9430 | 308 | 18 | 309 | 29 | 4 | 13.7931 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m1_e0 | het | 93.6777 | 93.9799 | 93.3775 | 88.3891 | 281 | 18 | 282 | 20 | 3 | 15.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e0 | het | 93.8813 | 94.1748 | 93.5897 | 89.6242 | 291 | 18 | 292 | 20 | 3 | 15.0000 | |