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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55501-55550 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.5177 | 93.9068 | 99.2780 | 66.5459 | 262 | 17 | 275 | 2 | 2 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.5190 | 93.9068 | 99.2806 | 63.1788 | 262 | 17 | 276 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9684 | 93.9086 | 71.1625 | 61.2108 | 1110 | 72 | 1108 | 449 | 440 | 97.9955 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1039 | 93.9086 | 98.4043 | 52.4051 | 185 | 12 | 185 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | * | hetalt | 96.4051 | 93.9092 | 99.0373 | 64.2371 | 9621 | 624 | 9670 | 94 | 88 | 93.6170 | |
| gduggal-snapplat | SNP | tv | map_siren | homalt | 96.8214 | 93.9095 | 99.9197 | 58.2133 | 16190 | 1050 | 16181 | 13 | 5 | 38.4615 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e0 | homalt | 95.1542 | 93.9130 | 96.4286 | 96.9449 | 108 | 7 | 108 | 4 | 3 | 75.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.5295 | 93.9130 | 95.1542 | 63.9110 | 216 | 14 | 216 | 11 | 9 | 81.8182 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.9006 | 93.9173 | 97.9695 | 71.5112 | 386 | 25 | 386 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l100_m1_e0 | * | 95.4122 | 93.9174 | 96.9553 | 75.8528 | 67999 | 4404 | 68019 | 2136 | 1080 | 50.5618 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6665 | 93.9188 | 99.5798 | 30.8815 | 8726 | 565 | 8768 | 37 | 37 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6665 | 93.9188 | 99.5798 | 30.8815 | 8726 | 565 | 8768 | 37 | 37 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 96.6121 | 93.9189 | 99.4643 | 83.9725 | 556 | 36 | 557 | 3 | 1 | 33.3333 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.2391 | 93.9189 | 79.7203 | 77.1200 | 139 | 9 | 114 | 29 | 29 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | HG002compoundhet | homalt | 36.8099 | 93.9210 | 22.8907 | 61.1792 | 309 | 20 | 312 | 1051 | 920 | 87.5357 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | homalt | 49.1644 | 93.9210 | 33.2972 | 76.0021 | 309 | 20 | 307 | 615 | 607 | 98.6992 | |
| jpowers-varprowl | INDEL | I1_5 | HG002compoundhet | homalt | 36.7720 | 93.9210 | 22.8614 | 60.8545 | 309 | 20 | 310 | 1046 | 940 | 89.8662 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.7303 | 93.9215 | 99.7122 | 49.8216 | 5887 | 381 | 5890 | 17 | 4 | 23.5294 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2929 | 93.9216 | 96.7048 | 85.0071 | 1437 | 93 | 1438 | 49 | 29 | 59.1837 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2929 | 93.9216 | 96.7048 | 85.0071 | 1437 | 93 | 1438 | 49 | 29 | 59.1837 | |
| gduggal-bwavard | INDEL | * | map_l100_m0_e0 | * | 89.2130 | 93.9219 | 84.9537 | 89.1607 | 1468 | 95 | 1468 | 260 | 67 | 25.7692 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8427 | 93.9232 | 97.8424 | 72.3914 | 4034 | 261 | 4036 | 89 | 6 | 6.7416 | |
| qzeng-custom | INDEL | D1_5 | HG002compoundhet | het | 92.9212 | 93.9236 | 91.9400 | 64.3165 | 1623 | 105 | 11042 | 968 | 705 | 72.8306 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0004 | 93.9245 | 96.1014 | 81.4130 | 572 | 37 | 493 | 20 | 18 | 90.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | hetalt | 96.5594 | 93.9271 | 99.3435 | 47.5316 | 232 | 15 | 454 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002complexvar | hetalt | 96.5553 | 93.9271 | 99.3348 | 48.1609 | 232 | 15 | 448 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | * | map_siren | hetalt | 96.8685 | 93.9271 | 100.0000 | 86.9855 | 232 | 15 | 234 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I6_15 | HG002complexvar | het | 78.6071 | 93.9278 | 67.5834 | 56.2348 | 2212 | 143 | 2187 | 1049 | 981 | 93.5176 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6722 | 93.9296 | 99.5798 | 30.8791 | 8727 | 564 | 8769 | 37 | 37 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6722 | 93.9296 | 99.5798 | 30.8791 | 8727 | 564 | 8769 | 37 | 37 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e1 | * | 96.8015 | 93.9300 | 99.8540 | 79.7875 | 2739 | 177 | 2736 | 4 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 96.4959 | 93.9311 | 99.2046 | 59.5968 | 9596 | 620 | 9604 | 77 | 71 | 92.2078 | |
| cchapple-custom | INDEL | D6_15 | HG002compoundhet | * | 95.2970 | 93.9320 | 96.7022 | 31.4437 | 8483 | 548 | 9882 | 337 | 326 | 96.7359 | |
| eyeh-varpipe | INDEL | * | func_cds | * | 95.4669 | 93.9326 | 97.0522 | 79.5644 | 418 | 27 | 428 | 13 | 11 | 84.6154 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8663 | 93.9345 | 99.9869 | 25.8659 | 7604 | 491 | 7640 | 1 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | homalt | 96.6127 | 93.9349 | 99.4477 | 77.1281 | 3841 | 248 | 3781 | 21 | 16 | 76.1905 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 95.3242 | 93.9349 | 96.7552 | 73.1272 | 1270 | 82 | 1312 | 44 | 43 | 97.7273 | |
| astatham-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 95.3253 | 93.9349 | 96.7576 | 72.9412 | 1270 | 82 | 1313 | 44 | 43 | 97.7273 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5247 | 93.9357 | 99.2605 | 36.0262 | 1549 | 100 | 1745 | 13 | 13 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6565 | 93.9394 | 95.3846 | 93.7977 | 62 | 4 | 62 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | tech_badpromoters | het | 96.8750 | 93.9394 | 100.0000 | 55.7143 | 31 | 2 | 31 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 96.5069 | 93.9394 | 99.2188 | 80.8096 | 124 | 8 | 127 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_siren | hetalt | 96.8750 | 93.9394 | 100.0000 | 76.3819 | 93 | 6 | 94 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.2414 | 93.9394 | 94.5455 | 90.9836 | 155 | 10 | 156 | 9 | 2 | 22.2222 | |
| bgallagher-sentieon | INDEL | * | map_l100_m0_e0 | hetalt | 95.4305 | 93.9394 | 96.9697 | 90.0901 | 31 | 2 | 32 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | I1_5 | map_l150_m1_e0 | homalt | 69.0375 | 93.9394 | 54.5714 | 85.0810 | 186 | 12 | 191 | 159 | 143 | 89.9371 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | hetalt | 96.8750 | 93.9394 | 100.0000 | 91.2088 | 31 | 2 | 32 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l150_m2_e1 | het | 95.1831 | 93.9394 | 96.4602 | 91.7945 | 868 | 56 | 872 | 32 | 4 | 12.5000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6565 | 93.9394 | 95.3846 | 93.7440 | 62 | 4 | 62 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l250_m0_e0 | het | 92.5373 | 93.9394 | 91.1765 | 97.2313 | 31 | 2 | 31 | 3 | 1 | 33.3333 | |