methyAnalysis (version 1.14.0)

asBigMatrix-methods: convert the data matrix in the assayData of a GenoSet as BigMatrix

Description

convert the data matrix in the assayData of a GenoSet as BigMatrix

Usage

"asBigMatrix"(object, rowInd=NULL, colInd=NULL, nCol=NULL, dimNames=NULL, saveDir='.', savePrefix=NULL, ...)

Arguments

object

an object of GenoSet or its inherited class

rowInd

the subset of row index

colInd

the subset of column index

nCol

the number of columns of the data, which can be larger than the real data dimension. It is designed for adding future data.

dimNames

the dimension names, which is a list of two character vectors (rownames and colnames)

saveDir

the parent directory to save the BigMatrix data files

savePrefix

the folder name prefix of the directory to save the BigMatrix data files. The fold name will be like this: paste(savePrefix, '_bigmat', sep='')

...

optional arguments to BigMatrix

Details

This function does not work in Windows because the dependent package bigmemoryExtras does not support it. In order to make lumi package still compilation under Windows, I deliberately remove the dependency of bigmemoryExtras package. As a result, users need to manually load the bigmemoryExtras function before using this function.

The BigMatrix data files will be save in the directory file.path(saveDir, paste(savePrefix, '_bigmat', sep=''))

See Also

BigMatrix