PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
48451-48500 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | I16_PLUS | HG002complexvar | * | 98.4592 | 97.6318 | 99.3007 | 66.7785 | 1278 | 31 | 1278 | 9 | 8 | 88.8889 | |
| cchapple-custom | INDEL | I16_PLUS | HG002complexvar | * | 97.1576 | 96.1803 | 98.1550 | 66.7729 | 1259 | 50 | 1330 | 25 | 18 | 72.0000 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e0 | homalt | 99.1079 | 98.8713 | 99.3457 | 66.7718 | 9110 | 104 | 9110 | 60 | 39 | 65.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 79.6041 | 74.3750 | 85.6240 | 66.7717 | 119 | 41 | 542 | 91 | 45 | 49.4505 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.4859 | 43.1507 | 66.9753 | 66.7692 | 378 | 498 | 434 | 214 | 200 | 93.4579 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 55.6919 | 47.1555 | 68.0020 | 66.7689 | 15086 | 16906 | 17977 | 8459 | 3479 | 41.1278 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 21.0208 | 18.3844 | 24.5399 | 66.7686 | 66 | 293 | 80 | 246 | 190 | 77.2358 | |
| astatham-gatk | SNP | ti | map_l125_m0_e0 | homalt | 99.0916 | 98.3745 | 99.8192 | 66.7668 | 4418 | 73 | 4418 | 8 | 7 | 87.5000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3796 | 95.3528 | 97.4288 | 66.7644 | 3878 | 189 | 3865 | 102 | 94 | 92.1569 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 29.6245 | 17.6158 | 93.0702 | 66.7638 | 2023 | 9461 | 2122 | 158 | 138 | 87.3418 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e1 | * | 57.3730 | 43.7750 | 83.2258 | 66.7620 | 5035 | 6467 | 5031 | 1014 | 885 | 87.2781 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4393 | 99.6564 | 99.2231 | 66.7595 | 31036 | 107 | 31036 | 243 | 19 | 7.8189 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4393 | 99.6564 | 99.2231 | 66.7595 | 31036 | 107 | 31036 | 243 | 19 | 7.8189 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.7997 | 96.7251 | 66.4796 | 66.7555 | 827 | 28 | 829 | 418 | 3 | 0.7177 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002complexvar | * | 97.3999 | 97.3828 | 97.4170 | 66.7553 | 1600 | 43 | 1584 | 42 | 31 | 73.8095 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6130 | 91.3876 | 98.0745 | 66.7520 | 764 | 72 | 764 | 15 | 13 | 86.6667 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6130 | 91.3876 | 98.0745 | 66.7520 | 764 | 72 | 764 | 15 | 13 | 86.6667 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.0148 | 90.6040 | 97.6923 | 66.7519 | 135 | 14 | 127 | 3 | 1 | 33.3333 | |
| jli-custom | SNP | * | map_l125_m1_e0 | * | 99.3178 | 99.0844 | 99.5522 | 66.7512 | 44912 | 415 | 44909 | 202 | 67 | 33.1683 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6806 | 99.6087 | 99.7525 | 66.7490 | 4837 | 19 | 4837 | 12 | 10 | 83.3333 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e1 | homalt | 99.1004 | 98.8820 | 99.3197 | 66.7481 | 9198 | 104 | 9198 | 63 | 40 | 63.4921 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 73.6289 | 89.6552 | 62.4633 | 66.7479 | 416 | 48 | 426 | 256 | 253 | 98.8281 | |
| gduggal-bwaplat | SNP | * | tech_badpromoters | * | 92.8814 | 87.2611 | 99.2754 | 66.7470 | 137 | 20 | 137 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2980 | 98.3871 | 94.2957 | 66.7441 | 1159 | 19 | 1620 | 98 | 95 | 96.9388 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8892 | 97.3753 | 98.4085 | 66.7402 | 742 | 20 | 742 | 12 | 7 | 58.3333 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.6955 | 94.4156 | 94.9771 | 66.7371 | 6357 | 376 | 6429 | 340 | 300 | 88.2353 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7116 | 99.6705 | 99.7527 | 66.7352 | 4840 | 16 | 4840 | 12 | 10 | 83.3333 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.3469 | 89.3925 | 59.3632 | 66.7339 | 5739 | 681 | 11355 | 7773 | 6089 | 78.3353 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.3469 | 89.3925 | 59.3632 | 66.7339 | 5739 | 681 | 11355 | 7773 | 6089 | 78.3353 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5070 | 99.9434 | 91.4477 | 66.7295 | 1766 | 1 | 1775 | 166 | 104 | 62.6506 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.9398 | 99.7251 | 94.3058 | 66.7272 | 3628 | 10 | 3627 | 219 | 217 | 99.0868 | |
| anovak-vg | INDEL | I1_5 | HG002complexvar | het | 44.4856 | 30.2381 | 84.1220 | 66.7223 | 5500 | 12689 | 6204 | 1171 | 683 | 58.3262 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.7982 | 92.4763 | 97.2396 | 66.7223 | 1561 | 127 | 1550 | 44 | 15 | 34.0909 | |
| raldana-dualsentieon | SNP | * | map_l100_m1_e0 | het | 99.0827 | 99.1953 | 98.9703 | 66.7199 | 44994 | 365 | 44983 | 468 | 7 | 1.4957 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.2259 | 98.5684 | 99.8923 | 66.7145 | 1859 | 27 | 1855 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.8181 | 97.0493 | 87.1220 | 66.7143 | 27134 | 825 | 26966 | 3986 | 179 | 4.4907 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 81.5331 | 72.3481 | 93.3894 | 66.7128 | 22255 | 8506 | 22222 | 1573 | 1272 | 80.8646 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | homalt | 99.7197 | 99.5884 | 99.8514 | 66.7125 | 6049 | 25 | 6049 | 9 | 6 | 66.6667 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 60.3225 | 50.6015 | 74.6667 | 66.7122 | 673 | 657 | 728 | 247 | 230 | 93.1174 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | hetalt | 91.1572 | 85.1041 | 98.1374 | 66.7119 | 3148 | 551 | 3372 | 64 | 64 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l125_m0_e0 | homalt | 99.4590 | 99.3246 | 99.5937 | 66.7118 | 2206 | 15 | 2206 | 9 | 7 | 77.7778 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | het | 81.8478 | 78.8551 | 85.0765 | 66.7091 | 675 | 181 | 667 | 117 | 113 | 96.5812 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 73.9330 | 59.3156 | 98.1108 | 66.7086 | 780 | 535 | 779 | 15 | 10 | 66.6667 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5826 | 97.8702 | 99.3056 | 66.7018 | 19162 | 417 | 19162 | 134 | 6 | 4.4776 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5826 | 97.8702 | 99.3056 | 66.7018 | 19162 | 417 | 19162 | 134 | 6 | 4.4776 | |
| jlack-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.4853 | 99.5058 | 99.4648 | 66.6987 | 4832 | 24 | 4832 | 26 | 14 | 53.8462 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7964 | 99.6289 | 99.9645 | 66.6982 | 16912 | 63 | 16912 | 6 | 5 | 83.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7964 | 99.6289 | 99.9645 | 66.6982 | 16912 | 63 | 16912 | 6 | 5 | 83.3333 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 84.1984 | 77.2530 | 92.5161 | 66.6953 | 1423 | 419 | 1434 | 116 | 91 | 78.4483 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2661 | 91.3134 | 97.4160 | 66.6942 | 9198 | 875 | 9048 | 240 | 203 | 84.5833 | |