acquisitionDirectory    Ge the class organization of directory.
analyzeAcquisitionFIA   Wrapper function for the full FIA analysis
                        workflow.
determiningInjectionZone
                        First guess of the limit of the injection peak.
determiningSizePeak.Geom
                        Determine the limits of the injection peak in a
                        FIA acquisition.
estimateNoiseMS         Estimate the noise of a mass spectrometer using
                        multiple MS acquisition.
exportDataMatrix,proFIAset-method
                        Export data matrix.
exportExpressionSet,proFIAset-method
                        Export proFIAset to ExpressionSet
exportPeakTable,proFIAset-method
                        Export proFIAset as a peak table.
exportSampleMetadata,proFIAset-method
                        Export samples metadata.
exportVariableMetadata,proFIAset-method
                        Export variable metadata.
findBandsFIA            Detect band in a FIA acquisition
findFIASignal           Detect peaks in an FIA acquisition.
findMzGroup,proFIAset-method
                        find a group in a FIA experiment.
getInjectionPeak        Fit an injection peak to an FIA acquisition.
group.FIA,proFIAset-method
                        Group the peaks of an FIA acquisition.
impute.FIA,proFIAset-method
                        Fill missing values using the provided method.
impute.KNN_TN,proFIAset-method
                        Fill missing values in the peak table using
                        K-nearest Neighbour for tuncated distributions.
impute.randomForest,proFIAset-method
                        Fill missing values in the peak table using
                        random forest.
makeDataMatrix,proFIAset-method
                        Construct the data matrix of a proFIAset
                        object.
noiseEstimation-class   An S4 class to represent heteroscedasctic noise
                        of MS.
peaksGroup,proFIAset-method
                        Return the peaks corresponding to a group.
plot,proFIAset,ANY-method
                        Plot a summary of an FIA experiment.
plotFlowgrams,proFIAset-method
                        Plot raw temporal profiles of the selected
                        group.
plotNoise               Plot the estimated noise from a proFIAset
                        object.
plotRaw,proFIAset-method
                        Plotting of raw data
plotSamplePeaks,proFIAset-method
                        Plot the sample peak of a proFIAset object.
proFIA-package          Process FIA-HRMS datasets.
proFIAset               Process FIA experiment.
proFIAset-class         An S4 class to represent an FIA experiments.
