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The data were log2 transformed and missing data were imputed using local least squares imputation from the pcaMethods package [ 16].
Since clustering and network inference need complete data, we imputed missing values using the Bayesian Principal Component Analysis (BPCA) imputation from the R-package 'pcaMethods' [ 38].
Tugendhat described the "imputation" from the NME magazine articles as a "very serious one".
It is still more impossible to withhold that imputation from the rash and barefaced expedients which have been employed to give success to the attempted imposition.
Additional genotype data were obtained by imputation from the GWAS.
Standard deviations ranged from 0.36 to 0.37 for imputation from the BovineSNP50 beadchip, and from 0.27 to 0.29 for imputation from the BovineHD beadchip.
Accuracy of imputation to whole-genome sequence data was generally high for imputation from the BovineHD beadchip, but was low for imputation from the BovineSNP50 beadchip.
The accuracy of imputation from the 7K to the 54K SNP panel was high (Table 3).
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If a high threshold is chosen (e.g. 0.9) the value of the VOI is almost always selected through standard multiple imputation (imputed from the likelihood).
A common locus tag format was introduced and missing values were filled up using knn-imputation from the impute R package [ 43] with k = 3 and eliminating genes and experiments with more than 30%and50%0% missing values respectively.
The imputations from the last iteration form the imputed dataset.
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