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| proFIA-package | Process FIA-HRMS datasets. |
| acquisitionDirectory | Create a table containg the classes of the acquisition. |
| analyzeAcquisitionFIA | Wrapper function for the full FIA analysis workflow. |
| dataMatrix | An S4 class to represent an FIA experiments. |
| dataMatrix-method | An S4 class to represent an FIA experiments. |
| determiningSizePeak | Determine the limits of the injection peak in a FIA acquisition. |
| determiningSizePeak.Geom | Determine the limits of the injection peak in a FIA acquisition. |
| estimateNoiseListFiles | Estimate the noise of multiple MS acquisition. |
| exportDataMatrix | Export data matrix. |
| exportDataMatrix-method | Export data matrix. |
| exportExpressionSet | Export proFIAset to ExpressionSet |
| exportExpressionSet-method | Export proFIAset to ExpressionSet |
| exportPeakTable | Export proFIAset as a peak table. |
| exportPeakTable-method | Export proFIAset as a peak table. |
| exportSampleMetadata | Export samples metadata. |
| exportSampleMetadata-method | Export samples metadata. |
| exportVariableMetadata | Export variable metadata. |
| exportVariableMetadata-method | Export variable metadata. |
| fillPeaks.WKNN | Fill missing values in the peak table. |
| fillPeaks.WKNN-method | Fill missing values in the peak table. |
| findBandsFIA | Detect band in a FIA acquisition |
| findFIASignal | Detect peaks in an FIA acquisition. |
| findMzGroup | find a group in a FIA experiment. |
| findMzGroup-method | find a group in a FIA experiment. |
| findPeaks | Detect peaks in an FIA acquisition. |
| getInjectionPeak | Fit an injection peak to an FIA acquisition. |
| group.FIA | Group the peaks of an FIA acquisition. |
| group.FIA-method | Group the peaks of an FIA acquisition. |
| groupMatrix | An S4 class to represent an FIA experiments. |
| groupMatrix-method | An S4 class to represent an FIA experiments. |
| injectionPeaks | An S4 class to represent an FIA experiments. |
| injectionPeaks-method | An S4 class to represent an FIA experiments. |
| makeDataMatrix | Construct the data matrix of a proFIAset object. |
| makeDataMatrix-method | Construct the data matrix of a proFIAset object. |
| noiseEstimation-class | An S4 class to represent heteroscedasctic noise of MS. |
| peaks | An S4 class to represent an FIA experiments. |
| peaks-method | An S4 class to represent an FIA experiments. |
| peaksGroup | Return the peaks corresponding to a group. |
| peaksGroup-method | Return the peaks corresponding to a group. |
| phenoClasses | An S4 class to represent an FIA experiments. |
| phenoClasses-method | An S4 class to represent an FIA experiments. |
| plotEICs | Plot raw temporal profiles of the selected group. |
| plotEICs-method | Plot raw temporal profiles of the selected group. |
| plotInjectionPeaks | Plot the injection peaks of a proFIAset object. |
| plotInjectionPeaks-method | Plot the injection peaks of a proFIAset object. |
| plotNoise | Plot the estimated noise from a proFIAset object. |
| plotRaw | plotting of raw data |
| plotRaw-method | plotting of raw data |
| proFIA | Process FIA-HRMS datasets. |
| proFIAset | Process FIA experiment. |
| proFIAset-class | An S4 class to represent an FIA experiments. |