PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52151-52200 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | * | 90.1401 | 85.6845 | 95.0845 | 97.7994 | 1233 | 206 | 1238 | 64 | 7 | 10.9375 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.1406 | 89.3302 | 90.9658 | 70.1878 | 5735 | 685 | 5689 | 565 | 335 | 59.2920 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.1406 | 89.3302 | 90.9658 | 70.1878 | 5735 | 685 | 5689 | 565 | 335 | 59.2920 | |
| hfeng-pmm2 | INDEL | D16_PLUS | map_siren | homalt | 90.1408 | 94.1176 | 86.4865 | 92.8295 | 32 | 2 | 32 | 5 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.1408 | 82.0513 | 100.0000 | 60.9756 | 32 | 7 | 32 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.1408 | 82.0513 | 100.0000 | 61.4458 | 32 | 7 | 32 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | tech_badpromoters | homalt | 90.1408 | 82.0513 | 100.0000 | 58.4416 | 32 | 7 | 32 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | tech_badpromoters | homalt | 90.1408 | 82.0513 | 100.0000 | 62.3529 | 32 | 7 | 32 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 90.1456 | 99.3056 | 82.5328 | 68.5151 | 572 | 4 | 567 | 120 | 100 | 83.3333 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 90.1510 | 90.4439 | 89.8599 | 72.3577 | 3199 | 338 | 3208 | 362 | 144 | 39.7790 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.1554 | 89.6907 | 90.6250 | 93.3194 | 87 | 10 | 87 | 9 | 2 | 22.2222 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 90.1566 | 82.3347 | 99.6207 | 65.0618 | 797 | 171 | 788 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | * | 90.1581 | 85.7955 | 94.9883 | 97.8029 | 1208 | 200 | 1213 | 64 | 7 | 10.9375 | |
| gduggal-snapvard | INDEL | D1_5 | segdup | * | 90.1625 | 92.8377 | 87.6372 | 94.9594 | 1024 | 79 | 1198 | 169 | 138 | 81.6568 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l250_m1_e0 | het | 90.1639 | 91.6667 | 88.7097 | 95.3662 | 55 | 5 | 55 | 7 | 0 | 0.0000 | |
| ckim-dragen | INDEL | D16_PLUS | segdup | * | 90.1639 | 94.8276 | 85.9375 | 97.1806 | 55 | 3 | 55 | 9 | 3 | 33.3333 | |
| ghariani-varprowl | INDEL | * | map_l125_m0_e0 | het | 90.1652 | 97.6150 | 83.7719 | 93.3586 | 573 | 14 | 573 | 111 | 27 | 24.3243 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e1 | het | 90.1679 | 89.0995 | 91.2621 | 94.7636 | 188 | 23 | 188 | 18 | 3 | 16.6667 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 90.1687 | 84.9804 | 96.0316 | 53.5294 | 7146 | 1263 | 7163 | 296 | 207 | 69.9324 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m2_e1 | * | 90.1715 | 88.0000 | 92.4528 | 85.4555 | 242 | 33 | 245 | 20 | 12 | 60.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.1734 | 95.1220 | 85.7143 | 76.3021 | 78 | 4 | 78 | 13 | 13 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 90.1734 | 87.6404 | 92.8571 | 52.1822 | 234 | 33 | 234 | 18 | 13 | 72.2222 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.1750 | 93.3148 | 87.2396 | 48.1081 | 335 | 24 | 335 | 49 | 47 | 95.9184 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e1 | * | 90.1766 | 83.9608 | 97.3863 | 87.9176 | 1628 | 311 | 1863 | 50 | 36 | 72.0000 | |
| jlack-gatk | INDEL | * | map_l125_m0_e0 | het | 90.1770 | 97.4446 | 83.9181 | 93.0825 | 572 | 15 | 574 | 110 | 2 | 1.8182 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e0 | het | 90.1781 | 97.7925 | 83.6638 | 93.5954 | 886 | 20 | 886 | 173 | 49 | 28.3237 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | hetalt | 90.1858 | 82.6071 | 99.2955 | 37.7647 | 9233 | 1944 | 9162 | 65 | 55 | 84.6154 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | het | 90.1921 | 82.6403 | 99.2629 | 82.5538 | 3637 | 764 | 3636 | 27 | 5 | 18.5185 | |
| ckim-isaac | SNP | * | HG002compoundhet | homalt | 90.1933 | 82.4430 | 99.5521 | 29.8507 | 8889 | 1893 | 8890 | 40 | 35 | 87.5000 | |
| ckim-vqsr | INDEL | D1_5 | map_l250_m2_e1 | het | 90.1961 | 94.2623 | 86.4662 | 97.5411 | 115 | 7 | 115 | 18 | 1 | 5.5556 | |
| astatham-gatk | INDEL | I16_PLUS | map_l100_m1_e0 | * | 90.1961 | 88.4615 | 92.0000 | 95.7627 | 23 | 3 | 23 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | segdup | het | 90.1961 | 83.1325 | 98.5714 | 96.2325 | 69 | 14 | 69 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l150_m2_e1 | * | 90.1961 | 85.1852 | 95.8333 | 95.4111 | 23 | 4 | 23 | 1 | 0 | 0.0000 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.1961 | 85.1852 | 95.8333 | 97.7941 | 23 | 4 | 23 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 90.1961 | 82.1429 | 100.0000 | 54.1667 | 23 | 5 | 22 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I6_15 | map_l150_m2_e1 | * | 90.1961 | 85.1852 | 95.8333 | 91.8089 | 23 | 4 | 23 | 1 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l250_m0_e0 | * | 90.1961 | 95.8333 | 85.1852 | 98.5842 | 23 | 1 | 23 | 4 | 1 | 25.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.1961 | 100.0000 | 82.1429 | 88.0342 | 23 | 0 | 23 | 5 | 4 | 80.0000 | |
| qzeng-custom | INDEL | D1_5 | map_siren | hetalt | 90.1961 | 82.1429 | 100.0000 | 94.0476 | 69 | 15 | 5 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.1961 | 82.1429 | 100.0000 | 59.6491 | 69 | 15 | 69 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.1961 | 100.0000 | 82.1429 | 87.8261 | 23 | 0 | 23 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | D1_5 | map_siren | het | 90.2008 | 83.4870 | 98.0888 | 79.1671 | 1901 | 376 | 1899 | 37 | 14 | 37.8378 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 90.2013 | 82.6531 | 99.2669 | 29.5455 | 648 | 136 | 677 | 5 | 5 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 90.2020 | 86.7117 | 93.9850 | 69.4253 | 385 | 59 | 375 | 24 | 5 | 20.8333 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.2022 | 93.2476 | 87.3494 | 68.7382 | 290 | 21 | 290 | 42 | 36 | 85.7143 | |
| gduggal-snapvard | SNP | * | map_l100_m0_e0 | het | 90.2047 | 96.4159 | 84.7453 | 80.5659 | 20445 | 760 | 20216 | 3639 | 248 | 6.8151 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | het | 90.2073 | 98.2477 | 83.3834 | 68.6441 | 841 | 15 | 833 | 166 | 164 | 98.7952 | |
| qzeng-custom | INDEL | D6_15 | segdup | het | 90.2081 | 95.6522 | 85.3503 | 94.2743 | 88 | 4 | 134 | 23 | 6 | 26.0870 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 90.2120 | 83.8710 | 97.5904 | 68.6003 | 234 | 45 | 243 | 6 | 6 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |