PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72801-72850 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8928 | 99.8104 | 96.0474 | 55.7633 | 3159 | 6 | 3159 | 130 | 127 | 97.6923 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8473 | 99.8104 | 95.9599 | 54.4297 | 3159 | 6 | 3159 | 133 | 131 | 98.4962 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e1 | homalt | 43.2344 | 27.5790 | 100.0000 | 87.5507 | 3160 | 8298 | 3160 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0003 | 99.8736 | 96.1960 | 56.0166 | 3161 | 4 | 3161 | 125 | 123 | 98.4000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0155 | 99.8736 | 96.2253 | 56.0241 | 3161 | 4 | 3161 | 124 | 122 | 98.3871 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0161 | 99.9052 | 96.1971 | 56.0561 | 3162 | 3 | 3162 | 125 | 124 | 99.2000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0161 | 99.9052 | 96.1971 | 55.9029 | 3162 | 3 | 3162 | 125 | 124 | 99.2000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2325 | 99.9052 | 94.6990 | 55.6809 | 3162 | 3 | 3162 | 177 | 175 | 98.8701 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | het | 73.9537 | 60.0874 | 96.1398 | 96.8694 | 3163 | 2101 | 3163 | 127 | 9 | 7.0866 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 79.6213 | 77.5816 | 81.7711 | 43.7436 | 3163 | 914 | 3158 | 704 | 666 | 94.6023 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.0468 | 96.6402 | 77.5463 | 56.5992 | 3164 | 110 | 3723 | 1078 | 1046 | 97.0315 | |
| gduggal-bwaplat | SNP | tv | segdup | homalt | 98.7827 | 97.7455 | 99.8422 | 90.3210 | 3165 | 73 | 3164 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l250_m2_e0 | het | 96.3935 | 97.2956 | 95.5080 | 91.3622 | 3166 | 88 | 3168 | 149 | 10 | 6.7114 | |
| qzeng-custom | SNP | ti | map_l250_m2_e1 | * | 74.5851 | 62.3719 | 92.7460 | 95.5643 | 3166 | 1910 | 3158 | 247 | 208 | 84.2105 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 53.5870 | 96.7318 | 37.0581 | 53.6813 | 3167 | 107 | 3187 | 5413 | 5386 | 99.5012 | |
| ckim-isaac | SNP | * | map_l125_m0_e0 | homalt | 64.1166 | 47.1990 | 99.9369 | 61.5104 | 3168 | 3544 | 3168 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e1 | het | 97.7791 | 96.0897 | 99.5290 | 88.4572 | 3170 | 129 | 3170 | 15 | 6 | 40.0000 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e0 | het | 97.4935 | 97.4186 | 97.5685 | 90.4134 | 3170 | 84 | 3170 | 79 | 22 | 27.8481 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | het | 82.7367 | 96.1200 | 72.6248 | 92.6041 | 3171 | 128 | 3157 | 1190 | 66 | 5.5462 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 63.4268 | 61.9457 | 64.9805 | 71.6420 | 3171 | 1948 | 4342 | 2340 | 1455 | 62.1795 | |
| ckim-vqsr | INDEL | * | HG002complexvar | hetalt | 91.5318 | 85.7259 | 98.1813 | 66.4504 | 3171 | 528 | 3401 | 63 | 63 | 100.0000 | |
| egarrison-hhga | SNP | ti | map_l250_m2_e0 | het | 98.4630 | 97.4493 | 99.4980 | 89.1481 | 3171 | 83 | 3171 | 16 | 6 | 37.5000 | |
| ckim-gatk | SNP | * | map_l250_m2_e1 | het | 74.0542 | 60.2394 | 96.0909 | 96.7655 | 3171 | 2093 | 3171 | 129 | 10 | 7.7519 | |
| ckim-gatk | INDEL | * | HG002complexvar | hetalt | 91.5474 | 85.7529 | 98.1818 | 66.4439 | 3172 | 527 | 3402 | 63 | 63 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | HG002complexvar | * | 71.5536 | 66.2145 | 77.8293 | 58.1077 | 3173 | 1619 | 3191 | 909 | 871 | 95.8196 | |
| gduggal-snapplat | INDEL | I6_15 | HG002compoundhet | * | 49.4889 | 36.1782 | 78.2955 | 43.1184 | 3175 | 5601 | 3142 | 871 | 568 | 65.2124 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.6959 | 90.9221 | 96.6443 | 51.2348 | 3175 | 317 | 3168 | 110 | 81 | 73.6364 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.4206 | 97.7525 | 97.0909 | 66.2577 | 3175 | 73 | 3204 | 96 | 3 | 3.1250 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.0893 | 78.8037 | 99.8556 | 25.8168 | 3175 | 854 | 1383 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | het | 43.9232 | 77.6258 | 30.6263 | 58.8856 | 3178 | 916 | 2983 | 6757 | 6682 | 98.8900 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7723 | 97.8448 | 99.7176 | 64.7729 | 3178 | 70 | 3178 | 9 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6498 | 97.8448 | 99.4681 | 65.4748 | 3178 | 70 | 3179 | 17 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.5828 | 97.0678 | 76.5280 | 56.7627 | 3178 | 96 | 3606 | 1106 | 1089 | 98.4629 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 87.7018 | 87.7726 | 87.6311 | 81.7733 | 3180 | 443 | 3174 | 448 | 412 | 91.9643 | |
| gduggal-bwavard | SNP | ti | map_l250_m2_e0 | het | 88.2119 | 97.7566 | 80.3653 | 93.2143 | 3181 | 73 | 3168 | 774 | 21 | 2.7132 | |
| ghariani-varprowl | SNP | ti | map_l250_m2_e0 | het | 95.2267 | 97.7873 | 92.7967 | 92.2619 | 3182 | 72 | 3182 | 247 | 49 | 19.8381 | |
| raldana-dualsentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7585 | 97.9680 | 99.5620 | 62.6286 | 3182 | 66 | 3182 | 14 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7329 | 97.9988 | 99.4780 | 65.5490 | 3183 | 65 | 3240 | 17 | 5 | 29.4118 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.8359 | 98.0296 | 99.6557 | 67.1059 | 3184 | 64 | 3184 | 11 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.4390 | 98.0603 | 98.8206 | 66.9267 | 3185 | 63 | 3184 | 38 | 10 | 26.3158 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 63.4351 | 46.7851 | 98.4838 | 42.8226 | 3187 | 3625 | 2793 | 43 | 38 | 88.3721 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7149 | 98.1219 | 99.3151 | 65.8879 | 3187 | 61 | 3190 | 22 | 6 | 27.2727 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | homalt | 87.3307 | 78.0798 | 99.0683 | 73.9018 | 3188 | 895 | 3190 | 30 | 23 | 76.6667 | |
| jli-custom | SNP | ti | map_l250_m2_e1 | het | 97.8071 | 96.6657 | 98.9758 | 87.5900 | 3189 | 110 | 3189 | 33 | 16 | 48.4848 | |
| mlin-fermikit | SNP | tv | segdup | homalt | 98.3960 | 98.5485 | 98.2440 | 87.6277 | 3191 | 47 | 3189 | 57 | 49 | 85.9649 | |
| ciseli-custom | SNP | tv | HG002compoundhet | homalt | 78.4375 | 94.1854 | 67.2014 | 50.7638 | 3191 | 197 | 3184 | 1554 | 424 | 27.2844 | |
| raldana-dualsentieon | SNP | ti | map_l250_m2_e0 | het | 97.5401 | 98.0947 | 96.9918 | 89.4930 | 3192 | 62 | 3192 | 99 | 2 | 2.0202 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 54.7290 | 97.4954 | 38.0419 | 50.8575 | 3192 | 82 | 3194 | 5202 | 5186 | 99.6924 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.1743 | 84.7584 | 98.6411 | 42.0544 | 3192 | 574 | 3194 | 44 | 30 | 68.1818 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.1743 | 84.7584 | 98.6411 | 42.0544 | 3192 | 574 | 3194 | 44 | 30 | 68.1818 | |