Man pages for BEclear
Correction of batch effects in DNA methylation data

BEclear-example-methylation-dataExample data set for the BEclear-package
BEclear-example-sample-dataExample data set for the BEclear-package
BEclear-packageCorrection of batch effects in DNA methylation data
calcBatchEffectsCalculate the Batch Effects in a given data set
calcBatchEffectsForBatchcalcBatchEffectsForBatch
calcBlockFramecalcBlockFrame
calcPositionscalcPositions
calcScorecalculate batch effect score
calcSummarySummarize median comparison and p-value calculation results
clearBEgenesPrepare a data matrix for the BEclear function
combineBlockscombineBlocks
correctBatchEffectCorrect a batch effect in DNA methylation data
countValuesToPredictCount NA entries in a matrix
ex.corrected.dataExample matrix of corrected data for the BEclear-package
findOutsideValuesFind DNA methylation values out of the boundaries
gdepochgdepoch
imputeMissingDataMatrix prediction method using a Latent Factor Model
imputeMissingDataForBlockimputeMissingDataForBlock
localLossCalculating the Local Loss
lossloss
makeBoxplotproduce simple predefined boxplot for methylation data
preprocessBEclearpreprocessBEclear
replaceOutsideValuesReplace DNA methylation values out of the boundaries
runGradientDescentrunGradientDescent
BEclear documentation built on April 29, 2020, 3:51 a.m.