summarizeIntensitiesAsMedian: Summarizes the probe intensity as median of replicates...

Description Usage Arguments Examples

Description

As the probes are spotted onto the in quaduplet or duplicate the values have to be combined in some way. This function takes the median of the intensities for the spots. Effectively the mean for duplicates. If less than half of the spots are present an NA is added

Usage

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	summarizeIntensitiesAsMedian(eset,minSumlength=0, madAdjust=FALSE)

Arguments

eset

ExpressionSet containing probe intensity data to be summarized

minSumlength

The lowest acceptable length of the matrix to calculate a median

madAdjust

if TRUE then summarized data will be filtered according to the MAD median absolute deviation and set to NA if the median is less than MAD

Examples

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#Calculate the median of a matrix omiting NAs
## Not run: 
summarizeIntensitiesAsMedian(eset,minSumlength=0,madAdjust=TRUE)

## End(Not run)


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