PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65551-65600 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | * | map_l150_m2_e1 | het | 89.0053 | 98.5931 | 81.1170 | 93.2572 | 911 | 13 | 915 | 213 | 48 | 22.5352 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.9329 | 99.6718 | 98.2049 | 68.8794 | 911 | 3 | 930 | 17 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | homalt | 97.8518 | 96.3002 | 99.4541 | 89.6696 | 911 | 35 | 911 | 5 | 1 | 20.0000 | |
| 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 | |
| ndellapenna-hhga | INDEL | D16_PLUS | * | hetalt | 63.8503 | 47.1288 | 98.9624 | 49.3430 | 911 | 1022 | 763 | 8 | 5 | 62.5000 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | het | 68.9335 | 65.4925 | 72.7562 | 91.5977 | 911 | 480 | 916 | 343 | 203 | 59.1837 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 86.4016 | 94.7971 | 79.3722 | 71.2035 | 911 | 50 | 885 | 230 | 217 | 94.3478 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2916 | 98.8069 | 99.7809 | 75.8402 | 911 | 11 | 911 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.2924 | 98.8082 | 99.7814 | 28.9596 | 912 | 11 | 913 | 2 | 2 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.1797 | 98.9154 | 97.4549 | 72.8477 | 912 | 10 | 919 | 24 | 3 | 12.5000 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.7480 | 95.8991 | 95.5975 | 81.7695 | 912 | 39 | 912 | 42 | 37 | 88.0952 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.2954 | 98.8082 | 99.7875 | 49.1626 | 912 | 11 | 939 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.2923 | 98.9154 | 99.6721 | 75.2903 | 912 | 10 | 912 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m2_e0 | * | 79.7551 | 66.6667 | 99.2383 | 92.3930 | 912 | 456 | 912 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.4941 | 94.2149 | 96.8085 | 80.8641 | 912 | 56 | 819 | 27 | 18 | 66.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m0_e0 | het | 97.5923 | 97.6445 | 97.5401 | 94.6125 | 912 | 22 | 912 | 23 | 5 | 21.7391 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4553 | 99.8906 | 99.0239 | 69.8002 | 913 | 1 | 913 | 9 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.6181 | 99.8906 | 99.3471 | 70.2781 | 913 | 1 | 913 | 6 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.1193 | 99.8906 | 96.4097 | 74.9802 | 913 | 1 | 913 | 34 | 3 | 8.8235 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8360 | 99.8906 | 99.7814 | 68.9936 | 913 | 1 | 913 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7849 | 95.2033 | 78.0622 | 70.1093 | 913 | 46 | 854 | 240 | 21 | 8.7500 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1852 | 99.0239 | 99.3471 | 78.2176 | 913 | 9 | 913 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5095 | 99.8906 | 99.1314 | 69.3307 | 913 | 1 | 913 | 8 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 94.4475 | 100.0000 | 89.4792 | 73.5318 | 914 | 0 | 859 | 101 | 1 | 0.9901 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7272 | 100.0000 | 99.4559 | 70.7045 | 914 | 0 | 914 | 5 | 0 | 0.0000 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e1 | homalt | 97.9636 | 96.6173 | 99.3478 | 90.8449 | 914 | 32 | 914 | 6 | 2 | 33.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5101 | 99.0249 | 100.0000 | 30.0763 | 914 | 9 | 916 | 0 | 0 | ||
| jlack-gatk | SNP | ti | map_l250_m0_e0 | het | 90.4950 | 97.8587 | 84.1621 | 96.2262 | 914 | 20 | 914 | 172 | 18 | 10.4651 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4914 | 100.0000 | 97.0276 | 71.0154 | 914 | 0 | 914 | 28 | 1 | 3.5714 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.0137 | 96.8220 | 99.2350 | 34.3144 | 914 | 30 | 908 | 7 | 7 | 100.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 47.0662 | 51.8141 | 43.1154 | 95.1823 | 914 | 850 | 930 | 1227 | 69 | 5.6235 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.5160 | 85.8216 | 89.2788 | 67.7054 | 914 | 151 | 916 | 110 | 41 | 37.2727 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0153 | 100.0000 | 98.0498 | 71.9708 | 914 | 0 | 905 | 18 | 1 | 5.5556 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.6728 | 100.0000 | 99.3478 | 70.2554 | 914 | 0 | 914 | 6 | 0 | 0.0000 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8372 | 100.0000 | 99.6750 | 69.7278 | 914 | 0 | 920 | 3 | 2 | 66.6667 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.4570 | 99.1333 | 99.7828 | 28.5493 | 915 | 8 | 919 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.5861 | 95.4119 | 97.7895 | 64.6446 | 915 | 44 | 929 | 21 | 20 | 95.2381 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.2190 | 90.3258 | 96.3037 | 47.2880 | 915 | 98 | 964 | 37 | 37 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7796 | 97.1338 | 98.4340 | 74.7885 | 915 | 27 | 880 | 14 | 9 | 64.2857 | |
| anovak-vg | INDEL | * | map_l125_m1_e0 | het | 70.6166 | 68.5393 | 72.8236 | 88.9382 | 915 | 420 | 962 | 359 | 95 | 26.4624 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.6261 | 95.2133 | 90.1758 | 75.1797 | 915 | 46 | 872 | 95 | 85 | 89.4737 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | homalt | 98.5460 | 97.6521 | 99.4565 | 86.4046 | 915 | 22 | 915 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 96.9784 | 94.5248 | 99.5628 | 57.7562 | 915 | 53 | 911 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 26.2279 | 23.2884 | 30.0166 | 55.4521 | 915 | 3014 | 905 | 2110 | 2058 | 97.5355 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.5647 | 99.1333 | 100.0000 | 30.5303 | 915 | 8 | 917 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 79.0223 | 86.0771 | 73.0363 | 71.1846 | 915 | 148 | 1590 | 587 | 460 | 78.3646 | |
| hfeng-pmm1 | SNP | ti | map_l250_m0_e0 | het | 97.9133 | 97.9657 | 97.8610 | 93.2569 | 915 | 19 | 915 | 20 | 3 | 15.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0707 | 96.2145 | 100.0000 | 78.9928 | 915 | 36 | 876 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.6799 | 92.3387 | 97.1429 | 70.2456 | 916 | 76 | 918 | 27 | 3 | 11.1111 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | hetalt | 79.1212 | 67.7515 | 95.0766 | 77.6746 | 916 | 436 | 869 | 45 | 42 | 93.3333 | |