alignFeatures           Align two MSI objects to their common features
applySNR,quant_MSImagingExperiment-method
                        Apply SNR mask to intensity values
back2NA,quant_MSImagingExperiment-method
                        Set background pixel intensities to NA
bindPanels              Merge two MSI objects of the same tissue by
                        coordinate-matched rbind
buildFeatureMeta        Build per-feature metadata by joining an ion
                        library on m/z
calibrationInfo-class   Calibration metadata for an imaging experiment
combineMSIs,MSImagingExperiment-method
                        Combine MSI experiments across acquisitions
contributionHm          Group-mean heatmap with per-sample contribution
                        as opacity
createCalCurve,quant_MSImagingExperiment-method
                        Fit per-analyte calibration models
createMSIDataMatrix,quant_MSImagingExperiment-method
                        Create a feature-by-sample MSI data matrix
generateTxtImages       Load, process and optionally export per-feature
                        text-image matrices
imageR,quant_MSImagingExperiment-method
                        Draw an ion image for one feature
int2conc,quant_MSImagingExperiment-method
                        Convert response to calibrated amount estimates
int2response,quant_MSImagingExperiment-method
                        Normalise pixel intensities to
                        internal-standard response
int2SNR,quant_MSImagingExperiment-method
                        Calculate background-referenced signal-to-noise
                        ratios
plotCalCoverage,quant_MSImagingExperiment-method
                        Check that measured pixels fall within the
                        calibrated range
print.quantValidation   Print a validation result
quant_MSImagingExperiment
                        Quantifiable MS imaging experiment
quantileHm              Quantile heatmap of MSI features across samples
quantMSImageR-accessors
                        Accessors for calibration and tissue metadata
quantPalettes           Colour palettes used by quantMSImageR
readMRM                 Read a Waters DESI-MRM acquisition into an
                        MSImagingExperiment
removeBlankMzs,quant_MSImagingExperiment-method
                        Remove features without observed signal
runExample              Run the quantMSImageR example study
runStudy                Run a full DESI-MRM study from a YAML
                        configuration
selectTissuePixels      Interactively select tissue pixels for an
                        acquisition
stitchAcquisitions      Stitch acquisitions that are pieces of one
                        tissue into a single sample
summariseCalLevels,quant_MSImagingExperiment-method
                        Summarise the response at each calibration
                        level
tissueInfo-class        Tissue-level summaries for an imaging
                        experiment
trimMSI                 Remove pure-background border rows and columns
                        from an MSI object
validateConfig          Validate a study YAML configuration
zero2NA,quant_MSImagingExperiment-method
                        Replace zero intensities with NA
