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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17001-17050 / 86044 show all | |||||||||||||||
| 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 | |
| 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 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | * | 96.4662 | 96.0383 | 96.8979 | 94.3332 | 2109 | 87 | 2905 | 93 | 66 | 70.9677 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 73.9245 | 59.9078 | 96.5035 | 42.1053 | 130 | 87 | 138 | 5 | 5 | 100.0000 | |
| ckim-vqsr | SNP | tv | segdup | homalt | 98.5612 | 97.3132 | 99.8416 | 90.0895 | 3151 | 87 | 3151 | 5 | 5 | 100.0000 | |
| dgrover-gatk | SNP | * | map_l250_m2_e1 | het | 98.1329 | 98.3473 | 97.9194 | 91.5436 | 5177 | 87 | 5177 | 110 | 25 | 22.7273 | |
| dgrover-gatk | SNP | ti | map_l100_m2_e0 | homalt | 99.7264 | 99.5248 | 99.9287 | 59.9046 | 18222 | 87 | 18222 | 13 | 11 | 84.6154 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0199 | 98.6449 | 99.3978 | 76.9388 | 6333 | 87 | 6272 | 38 | 24 | 63.1579 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0199 | 98.6449 | 99.3978 | 76.9388 | 6333 | 87 | 6272 | 38 | 24 | 63.1579 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002complexvar | * | 96.5485 | 94.7048 | 98.4655 | 65.1748 | 1556 | 87 | 1540 | 24 | 18 | 75.0000 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | het | 99.5408 | 99.3864 | 99.6957 | 45.1283 | 14091 | 87 | 14087 | 43 | 32 | 74.4186 | |
| rpoplin-dv42 | SNP | ti | map_l250_m1_e0 | * | 98.4440 | 98.1000 | 98.7904 | 87.6879 | 4492 | 87 | 4492 | 55 | 36 | 65.4545 | |
| 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 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | * | 99.5225 | 99.4777 | 99.5673 | 71.4702 | 16570 | 87 | 16568 | 72 | 10 | 13.8889 | |
| hfeng-pmm2 | SNP | * | map_l250_m1_e0 | * | 98.5497 | 98.7953 | 98.3053 | 89.3707 | 7135 | 87 | 7135 | 123 | 15 | 12.1951 | |
| hfeng-pmm2 | SNP | tv | map_l100_m1_e0 | het | 99.2617 | 99.4357 | 99.0884 | 69.5075 | 15330 | 87 | 15326 | 141 | 12 | 8.5106 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e0 | het | 99.2723 | 99.4486 | 99.0966 | 70.7844 | 15690 | 87 | 15686 | 143 | 12 | 8.3916 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | het | 99.2765 | 99.4541 | 99.0995 | 70.8119 | 15851 | 87 | 15847 | 144 | 12 | 8.3333 | |
| hfeng-pmm3 | SNP | ti | map_l125_m0_e0 | * | 99.3611 | 99.3183 | 99.4039 | 74.1190 | 12675 | 87 | 12673 | 76 | 11 | 14.4737 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | homalt | 99.1882 | 98.5677 | 99.8166 | 67.8547 | 5987 | 87 | 5987 | 11 | 7 | 63.6364 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 90.9909 | 83.7736 | 99.5690 | 47.3923 | 444 | 86 | 462 | 2 | 1 | 50.0000 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | homalt | 99.1889 | 98.5707 | 99.8149 | 67.8533 | 5931 | 86 | 5931 | 11 | 7 | 63.6364 | |
| hfeng-pmm1 | SNP | tv | map_l100_m0_e0 | * | 99.3900 | 99.2241 | 99.5564 | 68.9143 | 10998 | 86 | 10997 | 49 | 15 | 30.6122 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.9073 | 92.8033 | 99.2261 | 33.2760 | 1109 | 86 | 1154 | 9 | 8 | 88.8889 | |
| jlack-gatk | INDEL | I16_PLUS | * | het | 96.8584 | 96.8359 | 96.8808 | 75.4914 | 2632 | 86 | 2609 | 84 | 21 | 25.0000 | |
| hfeng-pmm3 | INDEL | * | map_siren | * | 99.0674 | 98.8394 | 99.2964 | 80.1151 | 7324 | 86 | 7339 | 52 | 13 | 25.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 68.4211 | 64.4628 | 72.8972 | 66.9243 | 156 | 86 | 156 | 58 | 55 | 94.8276 | |
| gduggal-snapfb | INDEL | * | map_l100_m0_e0 | het | 92.0855 | 91.5769 | 92.5998 | 82.0643 | 935 | 86 | 951 | 76 | 13 | 17.1053 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m1_e0 | * | 68.5128 | 66.6667 | 70.4641 | 88.9767 | 172 | 86 | 167 | 70 | 58 | 82.8571 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e0 | * | 69.2012 | 67.4242 | 71.0744 | 89.5419 | 178 | 86 | 172 | 70 | 58 | 82.8571 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 16.6887 | 9.4737 | 70.0000 | 64.9123 | 9 | 86 | 14 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 32.0388 | 20.3704 | 75.0000 | 58.7629 | 22 | 86 | 30 | 10 | 10 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.5125 | 78.4461 | 46.6568 | 31.7444 | 313 | 86 | 314 | 359 | 357 | 99.4429 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 31.0781 | 20.3704 | 65.5172 | 56.3910 | 22 | 86 | 38 | 20 | 20 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 28.2517 | 18.8679 | 56.2044 | 48.1061 | 20 | 86 | 77 | 60 | 60 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 77.8017 | 64.4628 | 98.1013 | 78.1466 | 156 | 86 | 155 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | SNP | * | func_cds | het | 99.4076 | 99.2295 | 99.5864 | 39.9773 | 11075 | 86 | 11075 | 46 | 4 | 8.6957 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.5948 | 89.9415 | 95.4094 | 77.7594 | 769 | 86 | 769 | 37 | 3 | 8.1081 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 87.4862 | 79.2271 | 97.6676 | 67.3333 | 328 | 86 | 335 | 8 | 8 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m0_e0 | het | 96.5658 | 94.2895 | 98.9547 | 90.3152 | 1420 | 86 | 1420 | 15 | 7 | 46.6667 | |
| jli-custom | INDEL | D16_PLUS | HG002compoundhet | hetalt | 97.5241 | 95.5394 | 99.5931 | 24.6166 | 1842 | 86 | 1958 | 8 | 8 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3548 | 99.1736 | 99.5367 | 47.6794 | 10321 | 86 | 10312 | 48 | 43 | 89.5833 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e0 | het | 97.4110 | 96.2722 | 98.5771 | 78.4124 | 2221 | 86 | 2217 | 32 | 4 | 12.5000 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e1 | het | 97.4082 | 96.3295 | 98.5114 | 78.5661 | 2257 | 86 | 2250 | 34 | 4 | 11.7647 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 60.4024 | 51.6854 | 72.6562 | 71.4922 | 92 | 86 | 93 | 35 | 35 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7041 | 99.4765 | 99.9327 | 57.5361 | 16343 | 86 | 16341 | 11 | 4 | 36.3636 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | * | homalt | 97.3031 | 94.9173 | 99.8119 | 53.8350 | 1606 | 86 | 1592 | 3 | 3 | 100.0000 | |