AbstractMassObject-class
                        Class "AbstractMassObject"
MALDIquant-package      Quantitative Analysis of Mass Spectrometry Data
MALDIquant-parallel     Parallel Support in Package 'MALDIquant'
MassPeaks-class         Class "MassPeaks"
MassSpectrum-class      Class "MassSpectrum"
alignSpectra            Align MassSpectrum objects.
averageMassSpectra      Averages 'MassSpectrum' objects.
binPeaks                Align Peaks into discrete bins.
calibrateIntensity      Calibrates intensities of a MassSpectrum
                        object.
createMassPeaks         Creates a MassPeaks object.
createMassSpectrum      Creates a MassSpectrum object.
detectPeaks             Detects peaks in a MassSpectrum object.
determineWarpingFunctions
                        Determine warping functions of MassPeaks
                        objects.
estimateBaseline        Estimates the baseline of a MassSpectrum
                        object.
estimateNoise           Estimates the noise of a MassSpectrum object.
fiedler2009subset       Example Mass Spectra (raw)
filterPeaks             Removes less frequent peaks.
findEmptyMassObjects    Finds or removes empty AbstractMassObject
                        objects in a list.
intensityMatrix         Converts a list of MassPeaks objects into a
                        matrix.
isMassSpectrum          Tests for MassSpectrum or MassPeaks object.
isMassSpectrumList      Tests a list of MassSpectrum or MassPeaks
                        objects.
labelPeaks              Draws peak labels to plot.
match.closest           Relaxed Value Matching
mergeMassPeaks          Merges 'MassPeaks' objects.
monoisotopicPeaks       Finds monoisotopic peaks in a MassPeaks object.
msiSlices               Turn a list of AbstractMassObjects into a mass
                        spectrometry imaging slice.
plot,AbstractMassObject,missing-method
                        Plots an AbstractMassObject object.
plotMsiSlice            Plots a Mass Spectrometry Imaging dataset.
referencePeaks          Creates a reference 'MassPeaks' object.
removeBaseline          Removes the baseline of a MassSpectrum object.
smoothIntensity         Smoothes intensities of a MassSpectrum object.
transformIntensity      Transforms intensities of an AbstractMassObject
                        object.
trim                    Trim an AbstractMassObject object.
warpMassSpectra         Run warping functions on AbstractMassObject
                        objects.
