#  started: 2015-02-09 12:18:02
# 
# Analysis properties:
#   -cov_names pc1 PC2 PC3 sex cohort (user-supplied)
#   -data user/data_for_use/genfiles/out_imputed_merge_1.gen user/default/GWAS_DATA/bridges_gwas_ra/data/imputed_snptest/result_merge/ordered_covs_for_ra_gwas.sample (user-supplied)
#   -frequentist 1 (user-supplied)
#   -method score (user-supplied)
#   -missing_code NA (user-supplied)
#   -o /home/user/snptest_v2.5_linux_x86_64_static/OUT/imputed_merge_1.casecntl.additive.10pc.newsampfile.out (user-supplied)
#   -pheno ra (user-supplied)
Chromosome position rsid all_OR frequentist_add_pvalue frequentist_add_beta_1 frequentist_add_se_1
1 91472 rs6680825 0.516557 0.376351 -0.165061 0.186586
1 534247 kgp15717912 1.1879 0.162232 0.437082 0.312737
1 636975 rs144572927 1.02234 0.369939 -0.174385 0.19449
1 662622 rs61769339 0.906599 0.240992 -0.167444 0.1428
1 671782 rs190462060 1.1188 0.493493 -0.139117 0.203167
1 693731 rs61769350 0.910773 0.259981 -0.154979 0.137587

For instance e^0.43 = 1.5 , but the output above has 1.18.

I have read through the SNP test documentation but I am not certain why exponentiating the Beta given here does not give the OR provided.

Any help would be much appreciated.