MALDIcellassay (version 0.4.47)

getIntensityMatrix: Get the intensity matrix of single spectra for all fitted curves

Description

Get the intensity matrix of single spectra for all fitted curves

Usage

getIntensityMatrix(object, avg = FALSE, excludeNormMz = FALSE)

Value

A matrix with columns as m/z values and rows as concentrations/spectra

Arguments

object

Object of class MALDIassay

avg

Logical, return single spectra intensity matrix (default) or average spectra intensity matrix

excludeNormMz

Logical, exclude normMz from intensity matrix.

Details

Note that the returned matrix only contains m/z values that were actually fitted. If a variance filtering step was applied this will not include all m/z values. If you wish to get a matrix of all m/z values use MALDIquant::intensityMatrix(getSinglePeaks(object)). For average spectra intensity matrix with all m/z values use MALDIquant::intensityMatrix(getAvgPeaks(object), getAvgSpectra(object)).

Examples

# see example for `fitCurve()` to see how this data was generated
data(Blank2022res)
head(getIntensityMatrix(Blank2022res, avg = TRUE, excludeNormMz = TRUE) )