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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27151-27200 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.9502 | 97.0480 | 96.8526 | 49.3747 | 2367 | 72 | 2431 | 79 | 39 | 49.3671 | |
| jlack-gatk | SNP | * | tech_badpromoters | * | 97.5000 | 99.3631 | 95.7055 | 49.3789 | 156 | 1 | 156 | 7 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9613 | 99.3365 | 98.5889 | 49.3810 | 3144 | 21 | 3144 | 45 | 43 | 95.5556 | |
| hfeng-pmm2 | SNP | * | tech_badpromoters | homalt | 98.7654 | 100.0000 | 97.5610 | 49.3827 | 80 | 0 | 80 | 2 | 2 | 100.0000 | |
| qzeng-custom | SNP | * | tech_badpromoters | het | 95.5975 | 98.7013 | 92.6829 | 49.3827 | 76 | 1 | 76 | 6 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | tech_badpromoters | homalt | 95.0000 | 97.4359 | 92.6829 | 49.3827 | 38 | 1 | 38 | 3 | 2 | 66.6667 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.6874 | 96.9552 | 98.4307 | 49.3864 | 5668 | 178 | 14614 | 233 | 211 | 90.5579 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.6874 | 96.9552 | 98.4307 | 49.3864 | 5668 | 178 | 14614 | 233 | 211 | 90.5579 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 51.0807 | 34.9679 | 94.7321 | 49.3900 | 1091 | 2029 | 1061 | 59 | 45 | 76.2712 | |
| ckim-dragen | SNP | tv | HG002compoundhet | * | 99.7984 | 99.7422 | 99.8546 | 49.3913 | 8900 | 23 | 8925 | 13 | 8 | 61.5385 | |
| ltrigg-rtg2 | SNP | ti | map_siren | homalt | 99.8455 | 99.7415 | 99.9498 | 49.3967 | 37818 | 98 | 37812 | 19 | 18 | 94.7368 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7841 | 96.1888 | 99.4332 | 49.3970 | 21402 | 848 | 21403 | 122 | 112 | 91.8033 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.6243 | 90.3481 | 99.3255 | 49.4027 | 571 | 61 | 589 | 4 | 4 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 50.8522 | 34.3937 | 97.5171 | 49.4033 | 2811 | 5362 | 3142 | 80 | 77 | 96.2500 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 82.7487 | 71.4392 | 98.3125 | 49.4079 | 1916 | 766 | 1806 | 31 | 20 | 64.5161 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.3820 | 91.3043 | 97.6744 | 49.4118 | 42 | 4 | 42 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0712 | 95.8175 | 98.3581 | 49.4267 | 1260 | 55 | 1258 | 21 | 13 | 61.9048 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6420 | 97.5355 | 99.7738 | 49.4362 | 3087 | 78 | 3087 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4286 | 99.1139 | 99.7452 | 49.4364 | 1566 | 14 | 1566 | 4 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9882 | 96.8323 | 99.1721 | 49.4419 | 9782 | 320 | 9703 | 81 | 32 | 39.5062 | |
| eyeh-varpipe | INDEL | * | HG002complexvar | het | 95.5256 | 94.2569 | 96.8290 | 49.4429 | 43558 | 2654 | 42048 | 1377 | 1284 | 93.2462 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.4075 | 95.0192 | 91.8496 | 49.4485 | 10912 | 572 | 13850 | 1229 | 1043 | 84.8657 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7660 | 99.6556 | 99.8767 | 49.4516 | 4051 | 14 | 4051 | 5 | 1 | 20.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4779 | 95.9039 | 99.1043 | 49.4530 | 6626 | 283 | 6639 | 60 | 51 | 85.0000 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9406 | 99.9307 | 99.9505 | 49.4545 | 10095 | 7 | 10095 | 5 | 3 | 60.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 84.8154 | 82.7107 | 87.0300 | 49.4577 | 9166 | 1916 | 9166 | 1366 | 1354 | 99.1215 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 71.1515 | 58.0150 | 91.9786 | 49.4595 | 1473 | 1066 | 344 | 30 | 29 | 96.6667 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 89.1338 | 86.8027 | 91.5935 | 49.4610 | 638 | 97 | 730 | 67 | 66 | 98.5075 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7994 | 99.7475 | 99.8514 | 49.4629 | 6716 | 17 | 6718 | 10 | 6 | 60.0000 | |
| ckim-gatk | SNP | tv | HG002compoundhet | * | 99.2966 | 98.8905 | 99.7061 | 49.4688 | 8824 | 99 | 8821 | 26 | 17 | 65.3846 | |
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3683 | 98.8824 | 99.8589 | 49.4773 | 4247 | 48 | 4247 | 6 | 0 | 0.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9554 | 99.9406 | 99.9703 | 49.4797 | 10096 | 6 | 10096 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 97.9167 | 100.0000 | 95.9184 | 49.4845 | 47 | 0 | 47 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5726 | 99.1784 | 99.9701 | 49.4910 | 10019 | 83 | 10019 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.8735 | 96.4965 | 99.2905 | 49.4936 | 6445 | 234 | 6437 | 46 | 35 | 76.0870 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0337 | 96.0444 | 98.0437 | 49.4938 | 16972 | 699 | 18343 | 366 | 341 | 93.1694 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0337 | 96.0444 | 98.0437 | 49.4938 | 16972 | 699 | 18343 | 366 | 341 | 93.1694 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.5107 | 97.2293 | 99.8263 | 49.4968 | 9896 | 282 | 9768 | 17 | 17 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.1609 | 98.4997 | 99.8312 | 49.4969 | 5843 | 89 | 5913 | 10 | 6 | 60.0000 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | * | 98.0032 | 96.5370 | 99.5145 | 49.4980 | 8614 | 309 | 8609 | 42 | 11 | 26.1905 | |
| ckim-dragen | INDEL | * | func_cds | * | 98.4444 | 99.5506 | 97.3626 | 49.5006 | 443 | 2 | 443 | 12 | 1 | 8.3333 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 55.0999 | 88.5135 | 40.0000 | 49.5006 | 131 | 17 | 182 | 273 | 271 | 99.2674 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.9671 | 94.1821 | 95.7654 | 49.5027 | 12983 | 802 | 12981 | 574 | 528 | 91.9861 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.2105 | 99.3947 | 97.0542 | 49.5042 | 2463 | 15 | 2471 | 75 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 50.1574 | 67.0715 | 40.0560 | 49.5050 | 497 | 244 | 1573 | 2354 | 1678 | 71.2829 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.8193 | 92.4187 | 97.3479 | 49.5090 | 2755 | 226 | 2753 | 75 | 52 | 69.3333 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 90.7313 | 91.0661 | 90.3989 | 49.5222 | 6116 | 600 | 6685 | 710 | 208 | 29.2958 | |
| gduggal-bwafb | INDEL | D16_PLUS | * | het | 87.0129 | 80.9433 | 94.0664 | 49.5246 | 2557 | 602 | 3995 | 252 | 244 | 96.8254 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.8247 | 99.2858 | 94.4828 | 49.5258 | 9453 | 68 | 9453 | 552 | 547 | 99.0942 | |