Cardinal-package        Mass spectrometry imaging tools
MSImagingArrays-class   MSImagingArrays: MS imaging data with arbitrary
                        m/z values
MSImagingExperiment-class
                        MSImagingExperiment: MS imaging data with
                        shared m/z values
MassDataFrame-class     MassDataFrame: Extended data frame with key
                        columns
MeansTest               Linear model-based testing for summarized
                        imaging experiments
PositionDataFrame-class
                        PositionDataFrame: Extended data frame with key
                        columns
ResultsList-class       ResultsList: List of modeling results
SpatialCV               Cross-validation for spectral imaging data
SpatialDGMM             Spatially-aware Dirichlet Gaussian mixture
                        model
SpatialFastmap          Spatially-aware FastMap projection
SpatialKMeans           Spatially-aware K-means clustering
SpatialNMF              Non-negative matrix factorization
SpatialPCA              Principal components analysis
SpatialPLS              Partial least squares (projection to latent
                        structures)
SpatialResults-class    SpatialResults: Modeling results with spatial
                        metadata
SpatialShrunkenCentroids
                        Spatially-aware shrunken centroid clustering
                        and classification
SpectraArrays-class     SpectraArrays: List of spectra arrays
SpectralImagingArrays-class
                        SpectralImagingArrays: Spectral imaging data
                        with arbitrary domain
SpectralImagingData-class
                        SpectralImagingData: Abstract class for
                        spectral imaging data
SpectralImagingExperiment-class
                        SpectralImagingExperiment: Spectral imaging
                        data with shared domain
XDataFrame-class        XDataFrame: Extended data frame with key
                        columns
bin                     Bin spectra
colocalized             Colocalized features
deprecated              Deprecated and defunct objects in Cardinal
estimateDomain          Estimate shared domain
features                Find feature indices
findNeighbors           Find spatial neighbors
normalize               Normalize spectra
peakAlign               Align peaks across spectra
peakPick                Peak pick spectra
peakProcess             Process peaks in mass spectra
pixels                  Find pixel indices
plot-image              Plot images from a spectral imaging dataset
plot-spectra            Plot spectra from a spectral imaging dataset
process                 Apply queued processing to spectra
readMSIData             Read mass spectrometry imaging data files
recalibrate             Recalibrate spectra
reduceBaseline          Reduce baselines in spectra
reexports               Re-exported objects from Cardinal
selectROI               Select regions-of-interest in an image
simulateSpectra         Simulate a mass spectrum or MS imaging
                        experiment
sliceImage              Slice an image
smooth                  Smooth spectra
spatialDists            Calculate spatially-smoothed distances
spatialWeights          Calculate spatial weights
spectrapply             Apply functions over spectra
subsetFeatures          Subset a spectral imaging dataset
summarizeFeatures       Summarize a spectral imaging dataset
writeMSIData            Write mass spectrometry imaging data files
