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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8951-9000 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | * | func_cds | homalt | 99.9713 | 99.9427 | 100.0000 | 23.1405 | 6975 | 4 | 6975 | 0 | 0 | ||
| ltrigg-rtg2 | SNP | * | func_cds | homalt | 99.9642 | 99.9284 | 100.0000 | 21.6932 | 6974 | 5 | 6974 | 0 | 0 | ||
| cchapple-custom | SNP | * | func_cds | homalt | 99.9713 | 99.9427 | 100.0000 | 20.5695 | 6975 | 4 | 6974 | 0 | 0 | ||
| astatham-gatk | SNP | * | func_cds | homalt | 99.9642 | 99.9284 | 100.0000 | 20.9745 | 6974 | 5 | 6974 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.8179 | 94.0683 | 97.6337 | 60.8078 | 5947 | 375 | 6973 | 169 | 154 | 91.1243 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.8179 | 94.0683 | 97.6337 | 60.8078 | 5947 | 375 | 6973 | 169 | 154 | 91.1243 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6571 | 99.3874 | 99.9283 | 62.5798 | 6976 | 43 | 6972 | 5 | 3 | 60.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.8519 | 94.5071 | 99.3160 | 27.2218 | 6951 | 404 | 6970 | 48 | 31 | 64.5833 | |
| mlin-fermikit | SNP | * | func_cds | homalt | 99.5356 | 99.8137 | 99.2590 | 20.0683 | 6966 | 13 | 6966 | 52 | 48 | 92.3077 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m0_e0 | het | 98.0155 | 96.4276 | 99.6566 | 50.1035 | 6964 | 258 | 6965 | 24 | 1 | 4.1667 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | het | 95.7712 | 96.0287 | 95.5150 | 83.3577 | 6964 | 288 | 6964 | 327 | 76 | 23.2416 | |
| jmaeng-gatk | SNP | * | func_cds | homalt | 99.8852 | 99.7707 | 100.0000 | 21.6496 | 6963 | 16 | 6963 | 0 | 0 | ||
| ckim-gatk | SNP | * | func_cds | homalt | 99.8852 | 99.7707 | 100.0000 | 21.5790 | 6963 | 16 | 6963 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.8306 | 94.1224 | 99.6991 | 48.9729 | 6950 | 434 | 6959 | 21 | 10 | 47.6190 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2932 | 99.0454 | 99.5422 | 62.8527 | 6952 | 67 | 6958 | 32 | 4 | 12.5000 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | homalt | 77.2828 | 62.9878 | 99.9713 | 72.8260 | 6957 | 4088 | 6957 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | * | map_l150_m0_e0 | het | 89.5077 | 87.5441 | 91.5613 | 90.3664 | 6951 | 989 | 6955 | 641 | 350 | 54.6022 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4418 | 98.9742 | 99.9138 | 61.4203 | 6947 | 72 | 6953 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | SNP | tv | map_l100_m0_e0 | het | 95.8224 | 96.2337 | 95.4146 | 78.9693 | 6950 | 272 | 6950 | 334 | 77 | 23.0539 | |
| ckim-vqsr | SNP | * | func_cds | homalt | 99.7774 | 99.5558 | 100.0000 | 21.6155 | 6948 | 31 | 6948 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.6741 | 97.8739 | 73.0725 | 38.0893 | 6537 | 142 | 6947 | 2560 | 2496 | 97.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | * | 92.6875 | 86.9663 | 99.2144 | 90.7902 | 6946 | 1041 | 6946 | 55 | 19 | 34.5455 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7466 | 96.0553 | 99.4986 | 53.1009 | 2362 | 97 | 6945 | 35 | 29 | 82.8571 | |
| asubramanian-gatk | SNP | * | func_cds | homalt | 99.7270 | 99.4555 | 100.0000 | 21.4908 | 6941 | 38 | 6941 | 0 | 0 | ||
| mlin-fermikit | INDEL | D1_5 | * | hetalt | 80.4314 | 67.3987 | 99.7126 | 64.5076 | 6905 | 3340 | 6939 | 20 | 20 | 100.0000 | |
| gduggal-snapplat | SNP | * | func_cds | homalt | 99.7054 | 99.4269 | 99.9856 | 21.7587 | 6939 | 40 | 6939 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | het | 82.9422 | 78.7616 | 87.5915 | 48.3471 | 1361 | 367 | 6939 | 983 | 315 | 32.0448 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | homalt | 97.0877 | 94.6363 | 99.6694 | 78.6440 | 6934 | 393 | 6935 | 23 | 14 | 60.8696 | |
| ciseli-custom | SNP | * | func_cds | homalt | 99.2844 | 99.8567 | 98.7187 | 22.2148 | 6969 | 10 | 6934 | 90 | 38 | 42.2222 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0488 | 98.8712 | 99.2269 | 57.4163 | 6657 | 76 | 6931 | 54 | 10 | 18.5185 | |
| ckim-gatk | SNP | ti | map_l125_m1_e0 | homalt | 77.0788 | 62.7343 | 99.9279 | 73.7914 | 6929 | 4116 | 6929 | 5 | 4 | 80.0000 | |
| gduggal-snapplat | SNP | ti | HG002compoundhet | homalt | 95.6482 | 94.5361 | 96.7868 | 36.7388 | 6990 | 404 | 6928 | 230 | 158 | 68.6957 | |
| gduggal-bwaplat | SNP | * | func_cds | homalt | 99.5972 | 99.1976 | 100.0000 | 22.2746 | 6923 | 56 | 6923 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | map_l125_m2_e1 | het | 78.9711 | 65.6022 | 99.1834 | 90.4624 | 6923 | 3630 | 6923 | 57 | 13 | 22.8070 | |
| qzeng-custom | SNP | * | func_cds | homalt | 99.8779 | 99.8281 | 99.9278 | 20.5349 | 6967 | 12 | 6918 | 5 | 3 | 60.0000 | |
| gduggal-snapvard | SNP | ti | map_l150_m1_e0 | homalt | 97.5731 | 95.5507 | 99.6829 | 71.1266 | 7001 | 326 | 6916 | 22 | 18 | 81.8182 | |
| jmaeng-gatk | SNP | * | map_l150_m0_e0 | * | 72.2268 | 57.5050 | 97.0803 | 92.6384 | 6919 | 5113 | 6916 | 208 | 23 | 11.0577 | |
| cchapple-custom | SNP | * | map_l250_m1_e0 | * | 96.0890 | 95.7906 | 96.3892 | 89.6069 | 6918 | 304 | 6914 | 259 | 62 | 23.9382 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 58.8795 | 58.5755 | 59.1866 | 73.4509 | 4918 | 3478 | 6913 | 4767 | 1577 | 33.0816 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5795 | 95.7485 | 99.4819 | 26.9554 | 6869 | 305 | 6912 | 36 | 34 | 94.4444 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | homalt | 96.4038 | 94.2115 | 98.7006 | 34.6979 | 6966 | 428 | 6912 | 91 | 82 | 90.1099 | |
| ckim-gatk | SNP | * | map_l150_m0_e0 | * | 72.2501 | 57.4634 | 97.2832 | 92.5200 | 6914 | 5118 | 6911 | 193 | 26 | 13.4715 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2107 | 98.4898 | 99.9421 | 60.9841 | 6913 | 106 | 6910 | 4 | 2 | 50.0000 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8536 | 98.8377 | 98.8695 | 82.8620 | 6803 | 80 | 6909 | 79 | 25 | 31.6456 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0167 | 98.2183 | 71.8900 | 39.0410 | 6560 | 119 | 6900 | 2698 | 2648 | 98.1468 | |
| bgallagher-sentieon | SNP | tv | map_l150_m1_e0 | het | 98.5918 | 99.3090 | 97.8850 | 78.8267 | 6898 | 48 | 6896 | 149 | 20 | 13.4228 | |
| ltrigg-rtg1 | SNP | * | map_l250_m1_e0 | * | 97.5589 | 95.4583 | 99.7540 | 82.3017 | 6894 | 328 | 6894 | 17 | 9 | 52.9412 | |
| ckim-vqsr | SNP | tv | map_l125_m1_e0 | het | 80.4152 | 68.0822 | 98.2049 | 89.2490 | 6894 | 3232 | 6893 | 126 | 1 | 0.7937 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | * | 93.2170 | 87.6733 | 99.5090 | 82.5398 | 6892 | 969 | 6890 | 34 | 15 | 44.1176 | |
| ciseli-custom | SNP | tv | map_l125_m1_e0 | het | 74.2570 | 68.0229 | 81.7491 | 80.4845 | 6888 | 3238 | 6889 | 1538 | 57 | 3.7061 | |