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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
71301-71350 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6791 | 97.8831 | 99.4882 | 71.3069 | 971 | 21 | 972 | 5 | 2 | 40.0000 | |
| gduggal-bwafb | SNP | tv | map_l125_m2_e1 | * | 98.6792 | 98.9014 | 98.4580 | 74.8361 | 16474 | 183 | 16474 | 258 | 51 | 19.7674 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l150_m2_e1 | * | 98.6792 | 98.4934 | 98.8658 | 90.1251 | 523 | 8 | 523 | 6 | 1 | 16.6667 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | * | 98.6793 | 98.2053 | 99.1579 | 57.8639 | 4706 | 86 | 4710 | 40 | 39 | 97.5000 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6794 | 99.6260 | 97.7506 | 58.4645 | 3996 | 15 | 3998 | 92 | 11 | 11.9565 | |
| jmaeng-gatk | SNP | ti | segdup | * | 98.6795 | 99.2681 | 98.0979 | 93.0686 | 19394 | 143 | 19392 | 376 | 6 | 1.5957 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.6796 | 98.9777 | 98.3834 | 43.8974 | 2130 | 22 | 2130 | 35 | 21 | 60.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6797 | 97.9695 | 99.4002 | 28.6675 | 1158 | 24 | 1160 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.6797 | 98.6928 | 98.6667 | 68.1529 | 151 | 2 | 148 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | homalt | 98.6799 | 97.5694 | 99.8159 | 71.2383 | 10999 | 274 | 10841 | 20 | 15 | 75.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l150_m1_e0 | * | 98.6799 | 98.8842 | 98.4765 | 86.4946 | 709 | 8 | 711 | 11 | 3 | 27.2727 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6800 | 99.8524 | 97.5347 | 38.6336 | 7441 | 11 | 7438 | 188 | 3 | 1.5957 | |
| ndellapenna-hhga | INDEL | * | map_siren | homalt | 98.6802 | 98.5687 | 98.7920 | 79.0989 | 2617 | 38 | 2617 | 32 | 23 | 71.8750 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e1 | homalt | 98.6802 | 98.7805 | 98.5801 | 89.0274 | 486 | 6 | 486 | 7 | 6 | 85.7143 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | homalt | 98.6803 | 97.5639 | 99.8226 | 73.2845 | 11414 | 285 | 11251 | 20 | 15 | 75.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6805 | 98.7990 | 98.5623 | 71.8841 | 1234 | 15 | 1234 | 18 | 12 | 66.6667 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6805 | 98.7990 | 98.5623 | 71.8841 | 1234 | 15 | 1234 | 18 | 12 | 66.6667 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.6805 | 98.0570 | 99.3119 | 64.2623 | 3028 | 60 | 3031 | 21 | 11 | 52.3810 | |
| ltrigg-rtg2 | INDEL | D6_15 | * | * | 98.6807 | 97.9036 | 99.4704 | 46.9068 | 25545 | 547 | 25354 | 135 | 83 | 61.4815 | |
| ndellapenna-hhga | SNP | * | map_l100_m0_e0 | het | 98.6808 | 97.7128 | 99.6681 | 67.9602 | 20720 | 485 | 20721 | 69 | 32 | 46.3768 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.6811 | 99.6718 | 97.7099 | 74.8698 | 911 | 3 | 896 | 21 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6815 | 97.8712 | 99.5052 | 68.1063 | 3816 | 83 | 3821 | 19 | 14 | 73.6842 | |
| gduggal-snapplat | SNP | * | segdup | het | 98.6817 | 98.5044 | 98.8598 | 94.8279 | 17058 | 259 | 17080 | 197 | 17 | 8.6294 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 98.6818 | 98.9247 | 98.4401 | 85.0991 | 1196 | 13 | 1199 | 19 | 3 | 15.7895 | |
| hfeng-pmm2 | SNP | * | map_l125_m0_e0 | het | 98.6818 | 99.0287 | 98.3373 | 78.8543 | 12541 | 123 | 12538 | 212 | 20 | 9.4340 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.6821 | 98.0105 | 99.3631 | 78.4932 | 936 | 19 | 936 | 6 | 3 | 50.0000 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | het | 98.6823 | 98.3530 | 99.0138 | 55.4973 | 20423 | 342 | 21686 | 216 | 103 | 47.6852 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.6831 | 97.5694 | 99.8224 | 66.3479 | 562 | 14 | 562 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.6834 | 100.0000 | 97.4010 | 66.6941 | 786 | 0 | 787 | 21 | 18 | 85.7143 | |
| ckim-dragen | SNP | ti | map_l100_m1_e0 | * | 98.6835 | 99.2948 | 98.0797 | 66.8879 | 47593 | 338 | 47601 | 932 | 106 | 11.3734 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m1_e0 | homalt | 98.6835 | 97.7180 | 99.6683 | 77.1071 | 1199 | 28 | 1202 | 4 | 2 | 50.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l125_m2_e0 | homalt | 98.6836 | 99.1202 | 98.2507 | 89.4526 | 338 | 3 | 337 | 6 | 3 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6837 | 98.6418 | 98.7256 | 72.6343 | 1162 | 16 | 1162 | 15 | 15 | 100.0000 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 51.9231 | 75 | 2 | 75 | 0 | 0 | ||
| jli-custom | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 50.6579 | 75 | 2 | 75 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | * | tech_badpromoters | * | 98.6842 | 98.6842 | 98.6842 | 49.3333 | 75 | 1 | 75 | 1 | 0 | 0.0000 | |
| ckim-gatk | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 50.9804 | 75 | 2 | 75 | 0 | 0 | ||
| eyeh-varpipe | SNP | ti | segdup | * | 98.6842 | 99.8874 | 97.5096 | 89.9888 | 19515 | 22 | 19225 | 491 | 13 | 2.6477 | |
| rpoplin-dv42 | INDEL | * | tech_badpromoters | * | 98.6842 | 98.6842 | 98.6842 | 90.5824 | 75 | 1 | 75 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 42.7481 | 75 | 2 | 75 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 44.8529 | 75 | 2 | 75 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 43.1818 | 75 | 2 | 75 | 0 | 0 | ||
| ckim-vqsr | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 50.9804 | 75 | 2 | 75 | 0 | 0 | ||
| dgrover-gatk | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 51.9231 | 75 | 2 | 75 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | tech_badpromoters | * | 98.6842 | 98.6842 | 98.6842 | 91.7481 | 75 | 1 | 75 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | HG002complexvar | homalt | 98.6845 | 99.2301 | 98.1449 | 51.7682 | 1160 | 9 | 1111 | 21 | 21 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | * | het | 98.6849 | 98.5049 | 98.8656 | 60.6937 | 9883 | 150 | 9848 | 113 | 59 | 52.2124 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |