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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9101-9150 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1286 | 95.4588 | 98.8579 | 46.1719 | 13159 | 626 | 13157 | 152 | 147 | 96.7105 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2519 | 95.6239 | 98.9362 | 48.5377 | 14138 | 647 | 14136 | 152 | 147 | 96.7105 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 45.6361 | 81.6092 | 31.6742 | 99.7077 | 71 | 16 | 70 | 151 | 4 | 2.6490 | |
| jlack-gatk | SNP | * | * | homalt | 99.9692 | 99.9511 | 99.9872 | 17.3366 | 1179584 | 577 | 1179556 | 151 | 96 | 63.5762 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | * | 89.3051 | 96.6013 | 83.0337 | 95.8027 | 739 | 26 | 739 | 151 | 9 | 5.9603 | |
| hfeng-pmm2 | SNP | * | HG002complexvar | * | 99.8743 | 99.7689 | 99.9799 | 18.8346 | 752638 | 1743 | 752495 | 151 | 59 | 39.0728 | |
| hfeng-pmm2 | SNP | ti | map_l100_m0_e0 | het | 99.0752 | 99.2276 | 98.9232 | 72.7259 | 13875 | 108 | 13872 | 151 | 12 | 7.9470 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | * | 93.3057 | 90.9478 | 95.7892 | 85.0002 | 3416 | 340 | 3435 | 151 | 40 | 26.4901 | |
| dgrover-gatk | SNP | tv | map_l100_m1_e0 | * | 99.4329 | 99.4817 | 99.3842 | 68.2243 | 24374 | 127 | 24370 | 151 | 29 | 19.2053 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3072 | 99.0383 | 99.5775 | 51.0793 | 16271 | 158 | 35588 | 151 | 137 | 90.7285 | |
| dgrover-gatk | INDEL | D1_5 | * | homalt | 99.8204 | 99.9489 | 99.6922 | 62.5668 | 48901 | 25 | 48906 | 151 | 149 | 98.6755 | |
| cchapple-custom | SNP | ti | map_l250_m2_e0 | het | 95.5856 | 95.7898 | 95.3823 | 91.6456 | 3117 | 137 | 3119 | 151 | 40 | 26.4901 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3820 | 97.9096 | 98.8590 | 53.4408 | 5480 | 117 | 13083 | 151 | 132 | 87.4172 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8353 | 99.6779 | 98.0069 | 41.1938 | 7428 | 24 | 7425 | 151 | 1 | 0.6623 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2863 | 99.7441 | 96.8705 | 43.6595 | 4677 | 12 | 4674 | 151 | 1 | 0.6623 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.1925 | 58.9431 | 48.4642 | 77.5994 | 145 | 101 | 142 | 151 | 149 | 98.6755 | |
| ltrigg-rtg1 | SNP | * | map_l100_m1_e0 | * | 99.3061 | 98.8274 | 99.7894 | 56.8168 | 71554 | 849 | 71550 | 151 | 36 | 23.8411 | |
| jli-custom | SNP | * | map_l150_m1_e0 | het | 98.8306 | 98.4521 | 99.2121 | 72.9358 | 19017 | 299 | 19014 | 151 | 48 | 31.7881 | |
| rpoplin-dv42 | SNP | * | map_l150_m0_e0 | * | 98.4495 | 98.1632 | 98.7374 | 78.1997 | 11811 | 221 | 11808 | 151 | 101 | 66.8874 | |
| raldana-dualsentieon | SNP | ti | map_l125_m0_e0 | het | 98.3262 | 98.4751 | 98.1776 | 75.7875 | 8137 | 126 | 8135 | 151 | 1 | 0.6623 | |
| anovak-vg | SNP | * | map_l100_m1_e0 | homalt | 91.6965 | 85.1461 | 99.3387 | 58.6113 | 22992 | 4011 | 22684 | 151 | 130 | 86.0927 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1330 | 98.7273 | 99.5420 | 75.3696 | 32813 | 423 | 32819 | 151 | 102 | 67.5497 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.1975 | 80.3556 | 86.2477 | 45.5627 | 949 | 232 | 947 | 151 | 143 | 94.7020 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6226 | 99.6991 | 99.5463 | 74.7408 | 33136 | 100 | 33130 | 151 | 120 | 79.4702 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8947 | 98.6945 | 71.4556 | 84.9886 | 378 | 5 | 378 | 151 | 124 | 82.1192 | |
| ltrigg-rtg2 | SNP | * | * | homalt | 99.9694 | 99.9515 | 99.9872 | 17.0159 | 1179585 | 572 | 1179505 | 151 | 139 | 92.0530 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7589 | 96.5419 | 99.0070 | 60.1541 | 15215 | 545 | 15055 | 151 | 115 | 76.1589 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 14.6893 | 100.0000 | 7.9268 | 78.0161 | 13 | 0 | 13 | 151 | 3 | 1.9868 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 14.6893 | 100.0000 | 7.9268 | 78.0161 | 13 | 0 | 13 | 151 | 3 | 1.9868 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e1 | het | 94.3848 | 96.2341 | 92.6053 | 87.5145 | 1891 | 74 | 1891 | 151 | 50 | 33.1126 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.0618 | 78.8133 | 94.7787 | 77.2212 | 2723 | 732 | 2741 | 151 | 73 | 48.3444 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 87.7974 | 81.4329 | 95.2411 | 80.6685 | 7570 | 1726 | 3002 | 150 | 102 | 68.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 86.8622 | 82.8909 | 91.2332 | 40.8368 | 3154 | 651 | 1561 | 150 | 79 | 52.6667 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | * | 92.9039 | 91.0815 | 94.8007 | 80.0152 | 2737 | 268 | 2735 | 150 | 120 | 80.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 30.5395 | 21.2919 | 53.9877 | 73.8991 | 178 | 658 | 176 | 150 | 150 | 100.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9634 | 99.6055 | 77.1689 | 87.2477 | 505 | 2 | 507 | 150 | 85 | 56.6667 | |
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | * | 70.1902 | 54.3480 | 99.0678 | 87.5048 | 15943 | 13392 | 15941 | 150 | 4 | 2.6667 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.3318 | 96.1892 | 92.5447 | 77.6767 | 2095 | 83 | 1862 | 150 | 136 | 90.6667 | |
| egarrison-hhga | INDEL | * | map_siren | * | 97.8660 | 97.7598 | 97.9724 | 96.4159 | 7244 | 166 | 7248 | 150 | 78 | 52.0000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m2_e1 | het | 99.0257 | 99.2009 | 98.8512 | 79.6610 | 12911 | 104 | 12907 | 150 | 13 | 8.6667 | |
| ciseli-custom | INDEL | * | map_l125_m0_e0 | het | 66.8718 | 63.0324 | 71.2092 | 93.2956 | 370 | 217 | 371 | 150 | 76 | 50.6667 | |
| ckim-gatk | INDEL | * | map_l100_m2_e0 | het | 96.1386 | 98.5696 | 93.8246 | 90.4219 | 2274 | 33 | 2279 | 150 | 14 | 9.3333 | |
| ckim-gatk | INDEL | * | map_l100_m2_e1 | het | 96.1964 | 98.5915 | 93.9148 | 90.4620 | 2310 | 33 | 2315 | 150 | 14 | 9.3333 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.1008 | 91.8360 | 94.4009 | 50.5628 | 2531 | 225 | 2529 | 150 | 146 | 97.3333 | |
| ciseli-custom | INDEL | C6_15 | * | * | 31.2766 | 42.8571 | 24.6231 | 95.7633 | 3 | 4 | 49 | 150 | 44 | 29.3333 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.5543 | 98.5633 | 94.6256 | 88.5760 | 2607 | 38 | 2641 | 150 | 21 | 14.0000 | |
| mlin-fermikit | SNP | * | map_l250_m0_e0 | * | 40.4330 | 27.1194 | 79.4239 | 82.2628 | 579 | 1556 | 579 | 150 | 132 | 88.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.7416 | 66.9975 | 98.4728 | 66.8746 | 10329 | 5088 | 9672 | 150 | 125 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | map_siren | * | 97.7903 | 97.6113 | 97.9700 | 96.5183 | 7233 | 177 | 7239 | 150 | 78 | 52.0000 | |