Correction of batch effects in DNA methylation data

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Documentation for package ‘BEclear’ version 2.9.2

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

BEclear-package	Correction of batch effects in DNA methylation data
BEclear example methylation data	Example data set for the BEclear-package
BEclear example sample data	Example data set for the BEclear-package
BEclearCorrected	Correction of batch effects in DNA methylation data
calcBatchEffects	Calculate the Batch Effects in a given data set
calcScore	calculate batch effect score
calcSummary	Summarize median comparison and p-value calculation results
clearBEgenes	Prepare a data matrix for the BEclear function
correctBatchEffect	Correct a batch effect in DNA methylation data
countValuesToPredict	Count NA entries in a matrix
ex.corrected.data	Example matrix of corrected data for the BEclear-package
ex.data	Example data set for the BEclear-package
ex.samples	Example data set for the BEclear-package
findOutsideValues	Find DNA methylation values out of the boundaries
imputeMissingData	Matrix prediction method using a Latent Factor Model
loss	loss
makeBoxplot	produce simple predefined boxplot for methylation data
preprocessBEclear	preprocessBEclear
replaceOutsideValues	Replace DNA methylation values out of the boundaries
_PACKAGE	Correction of batch effects in DNA methylation data