Description Usage Arguments Details Value Author(s) See Also Examples
View source: R/EDA_functions.R
Given a MSnSet, possibly subsetted from a bigger dataset, removes the all zero rows, and those whith row names (accessions) ending with '-R' in the corresponding expression matrix. NAs are replaced by zeroes, as usually a NA in a spectral counts matrix corresponds to a proteint not identified in a sample.
1 | pp.msms.data(msnset)
|
msnset |
A MSnSet with spectral counts in the expression matrix. |
An '-R' protein corresponds to an artefactual identification.
Rows with all zeros are uninformative and may give rise to errors in the
analysis.
A NA is understood as a unidintified protein in a sample.
Returns an updated MSnSet object.
Its processingData slot shows that the object has been processed by
pp.msms.data
Josep Gregori
1 2 3 4 | data(msms.dataset)
dim(msms.dataset)
msnset <- pp.msms.data(msms.dataset)
dim(msnset)
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