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cA missing value is imputed five times, resulting in five complete datasets including all imputed and not-imputed variables [24].
To check their imputation models, Abayomi et al. [ 7] performed KS tests on all imputed variables within a single imputed dataset.
All imputed SNPs with low imputation quality score (Rsquare<0.3) were excluded from the database.
In winner-takes-all, after the clean speech is imputed for each Gaussian belonging to state s, the mixture's likelihood is evaluated for all imputed values and the most likely imputation is selected as the imputation of the state.
All 63 SNPs were common in this population (median BMD lowering allele frequency: 0.4, range: 0.07 0.72; Supplementary Material, Table S1) and they all imputed well (all R for imputation quality > 0.72).
The squared correlation between the true genotype and the imputed genotype, averaged across all imputed SNPs was selected as the criterion of imputation merit.
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All SNPs imputed well (all R for imputation quality > 0.72, mean = 0.978; Supplementary Material, Table S1), therefore, dosages from the imputed data were used in subsequent analyses (i.e. the estimated number of BMD-lowering alleles).
A secondary analysis estimated WQS indices for all 10 imputed data sets to assess sensitivity of the results to the data imputation.
These variables were consistently identified in all five imputed datasets.
The results reported were those retrieved from pooled analyses on all five imputed datasets.
The analyses presented in the results section were carried out with all five imputed data sets.
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