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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69001-69050 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.5362 | 98.1948 | 98.8800 | 67.3655 | 4678 | 86 | 4679 | 53 | 21 | 39.6226 | |
| egarrison-hhga | SNP | ti | map_siren | homalt | 99.8640 | 99.7732 | 99.9551 | 52.1965 | 37830 | 86 | 37830 | 17 | 15 | 88.2353 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 91.7822 | 88.7139 | 95.0704 | 56.7337 | 676 | 86 | 675 | 35 | 23 | 65.7143 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 93.1635 | 90.0348 | 96.5174 | 56.7974 | 777 | 86 | 776 | 28 | 7 | 25.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 34.8485 | 0.0000 | 0.0000 | 46 | 86 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.1392 | 90.6725 | 83.8710 | 73.1533 | 836 | 86 | 884 | 170 | 86 | 50.5882 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | * | 89.7493 | 83.4297 | 97.1047 | 92.9146 | 433 | 86 | 436 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.6630 | 98.1948 | 97.1369 | 68.1953 | 4678 | 86 | 4682 | 138 | 8 | 5.7971 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1659 | 98.5874 | 99.7512 | 54.8686 | 6002 | 86 | 6015 | 15 | 3 | 20.0000 | |
| astatham-gatk | SNP | ti | map_l150_m1_e0 | homalt | 99.3483 | 98.8263 | 99.8759 | 68.2477 | 7241 | 86 | 7241 | 9 | 8 | 88.8889 | |
| bgallagher-sentieon | SNP | tv | map_l125_m1_e0 | * | 99.1503 | 99.4630 | 98.8396 | 71.8727 | 15930 | 86 | 15928 | 187 | 28 | 14.9733 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | * | 99.1716 | 99.4784 | 98.8667 | 73.4826 | 16403 | 86 | 16401 | 188 | 28 | 14.8936 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | * | 99.1800 | 99.4837 | 98.8781 | 73.5318 | 16571 | 86 | 16569 | 188 | 28 | 14.8936 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 40.2391 | 29.5082 | 63.2353 | 29.4815 | 36 | 86 | 301 | 175 | 141 | 80.5714 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6272 | 95.0801 | 96.1806 | 60.9315 | 1662 | 86 | 1662 | 66 | 49 | 74.2424 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.3834 | 97.8844 | 94.9277 | 48.0419 | 3979 | 86 | 4005 | 214 | 3 | 1.4019 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | het | 57.5615 | 54.7368 | 60.6936 | 97.5902 | 104 | 86 | 105 | 68 | 32 | 47.0588 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e0 | homalt | 83.8286 | 85.9247 | 81.8323 | 83.8435 | 525 | 86 | 527 | 117 | 100 | 85.4701 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 86 | 0 | 0 | 0 | |||
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5094 | 99.6893 | 99.3302 | 65.3964 | 27592 | 86 | 27582 | 186 | 18 | 9.6774 | |
| ckim-gatk | SNP | ti | HG002compoundhet | het | 99.4351 | 99.0847 | 99.7881 | 40.5181 | 9418 | 87 | 9418 | 20 | 15 | 75.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 94.7339 | 90.5742 | 99.2941 | 29.5191 | 836 | 87 | 844 | 6 | 5 | 83.3333 | |
| ckim-isaac | INDEL | * | map_l250_m1_e0 | het | 69.6080 | 54.2105 | 97.2222 | 97.4636 | 103 | 87 | 105 | 3 | 3 | 100.0000 | |
| ciseli-custom | SNP | * | func_cds | het | 97.0747 | 99.2205 | 95.0198 | 27.5142 | 11074 | 87 | 11047 | 579 | 4 | 0.6908 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 83.7687 | 85.9677 | 81.6794 | 83.9066 | 533 | 87 | 535 | 120 | 103 | 85.8333 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 27.6134 | 19.4444 | 47.6190 | 91.1579 | 21 | 87 | 20 | 22 | 11 | 50.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 92.4301 | 93.6681 | 91.2243 | 68.7320 | 1287 | 87 | 1289 | 124 | 91 | 73.3871 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.2014 | 93.3840 | 97.0909 | 41.7126 | 1228 | 87 | 1335 | 40 | 33 | 82.5000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 91.7821 | 85.1027 | 99.5992 | 26.0741 | 497 | 87 | 497 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 14.2857 | 68.1818 | 0 | 87 | 2 | 12 | 10 | 83.3333 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 54.1237 | 72.0257 | 43.3492 | 26.9375 | 224 | 87 | 1271 | 1661 | 1654 | 99.5786 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9228 | 99.1388 | 98.7077 | 45.0241 | 10015 | 87 | 9777 | 128 | 46 | 35.9375 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | hetalt | 77.8589 | 64.7773 | 97.5610 | 66.3244 | 160 | 87 | 160 | 4 | 3 | 75.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e1 | * | 94.0042 | 93.7634 | 94.2462 | 86.7599 | 1308 | 87 | 1294 | 79 | 38 | 48.1013 | |
| gduggal-bwavard | SNP | tv | map_l150_m1_e0 | homalt | 98.7838 | 97.7952 | 99.7926 | 71.2507 | 3859 | 87 | 3849 | 8 | 6 | 75.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 63.6016 | 46.9512 | 98.5507 | 57.2314 | 77 | 87 | 204 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6673 | 97.7687 | 99.5826 | 65.8986 | 3812 | 87 | 3817 | 16 | 9 | 56.2500 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e0 | homalt | 98.1866 | 96.7610 | 99.6549 | 90.0329 | 2599 | 87 | 2599 | 9 | 5 | 55.5556 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3938 | 98.9601 | 99.8314 | 43.2370 | 8279 | 87 | 8291 | 14 | 13 | 92.8571 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.0080 | 57.7670 | 99.1736 | 59.2593 | 119 | 87 | 120 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6163 | 97.7687 | 99.4788 | 68.1894 | 3812 | 87 | 3817 | 20 | 13 | 65.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.3152 | 95.0875 | 99.6497 | 51.5280 | 1684 | 87 | 1707 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6357 | 90.3010 | 99.4076 | 53.2928 | 810 | 87 | 839 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | het | 92.6044 | 97.8749 | 87.8724 | 79.5506 | 4007 | 87 | 3775 | 521 | 513 | 98.4645 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 44.9438 | 31.4961 | 78.4314 | 66.6667 | 40 | 87 | 40 | 11 | 11 | 100.0000 | |
| hfeng-pmm3 | SNP | tv | map_l125_m1_e0 | * | 99.5034 | 99.4568 | 99.5500 | 69.7161 | 15929 | 87 | 15927 | 72 | 10 | 13.8889 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e0 | * | 99.5176 | 99.4724 | 99.5629 | 71.4177 | 16402 | 87 | 16400 | 72 | 10 | 13.8889 | |