Man pages for shadieshghi/TargetedMSQC
TargetedMSQC for Automated Quality Assessment of Targeted Mass Spectrometry Data
| ApplyPeakBoundary | Extract the peak from a chromatogram by restricting the... |
| ApplyQCModel | Apply a binary predictive peak QC model to flag peaks that... |
| BuildPeakGroup | Convert a dataframe with Times and Intensities columns into a... |
| CalculateElutionShift | Compute elution shift of a transition peak relative to a... |
| CalculateFWHM | Compute FWHM and ratio of FWHM to peak width at base for... |
| CalculateJaggedness | Compute the jaggedness score for a transition peak. |
| CalculateMaxBoundaryIntensity | Compute maximum intensity at the peak boundary of each... |
| CalculateModality | Compute modality scores for transition peaks in a peak group... |
| CalculatePeakElutionShift | Compute pairwise elution shift of transition peaks in a peak... |
| CalculatePeakJaggedness | Compute jaggedness scores for transition peaks in a peak... |
| CalculatePeakMaxIntensity | Compute maximum intensity of each transition peak in a peak... |
| CalculatePeakShapeSimilarity | Compute similarity scores for transition peaks in a peak... |
| CalculatePeakSymmetry | Compute symmetry scores for transition peaks in a peak group... |
| CalculateTransitionSum | Compute the sum of transition peaks in a peak group of class... |
| CleanUpChromatograms | Convert the exported skyline chromatogram and peak boundary... |
| ExtractFeatures | Calculate an ensemble of QC features/metrics for a dataset... |
| is.na-peakObj-method | Default S3 is.na method for peakObj peakObj object is... |
| MakeDataSet | Create the dataset used as input to the TrainQCModel... |
| MakeTemplate | Create a training set template that can be shared with an... |
| peakObj-class | A custom class for storing single peaks or multiple peaks... |
| PlotChromPeak | Plot the chromatographic peaks of class peakObj |
| PlotQCReport | Draws violin plots to show distribution of QC features for a... |
| TargetedMSQC | TargetedMSQC: a tool for quality assessment and interference... |
| TrainQCModel | Train a binary classification model to flag peaks with poor... |
| ViolinPlotQCSummary | Graph violin plots to visualize distribution of QC features... |
