Return the percentiles of a betaMatrix for each probe type

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Description

It returns the percentiles of a betaMatrix for Type I Green, Type I Red and Type II probes. If no list of probes is provided, all probes are taken into account to compute the percentiles.

Usage

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getQuantiles(betaMatrix,goodProbes=NULL)

Arguments

betaMatrix

matrix containing the Beta values. Rows are probes, columns are samples.

goodProbes

Ids of the probes to be normalized (Id. of the form "cg00000029").

Value

Returns a list of three matrices of percentiles. For Type I green and Type I red probes, the corresponding matrices can be accessed by $green and $red. For Type II probes, the matrix can be accessed by $II

Author(s)

Jean-Philippe Fortin <jfortin@jhsph.edu>

Examples

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data(greenControlMatrix)
data(redControlMatrix)
data(sampleNames)
data(betaMatrix)
quantiles=getQuantiles(betaMatrix)