Man pages for BEclear
Correct for 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
calcBlockFramecalcBlockFrame
calcMediansCalculate median difference values
calcMediansForBatchcalcMediansForBatch
calcPositionscalcPositions
calcPvalsForBatchcalcPvalsForBatch
calcPvaluesCalculate p-values
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
dlosspdlossp
ex.corrected.dataExample matrix of corrected data for the BEclear-package
findWrongValuesFind DNA methylation values out of the boundaries
gdepochgdepoch
imputeMissingDataMatrix prediction method using a Latent Factor Model
imputeMissingDataForBlockimputeMissingDataForBlock
lossloss
makeBoxplotproduce simple predefined boxplot for methylation data
nnznnz
replaceWrongValuesReplace DNA methylation values out of the boundaries
runGradientDescentrunGradientDescent
BEclear documentation built on Nov. 1, 2018, 4:29 a.m.