Man pages for brunocontrino/DOSCHEDA
A DownStream Chemo-Proteomics Analysis Pipeline
| boxplot-ChemoProtSet-method | Default boxplot for objects of class ChemoProtSet |
| ChemoProtSet-class | An S4 class to run the doscheda pipeline |
| corrPlot-methods | Plot showing correlation between all channels across... |
| densityPlot-methods | Density plot for objects of class ChemoProtSet |
| doscheda | Doscheda: A package for Down Stream Chemo-Proteomics Data... |
| doschedaApp | Run shiny application for DOSCHEDA |
| doschedaData | Peptide Intensity data set for Doscheda |
| fitModel-methods | Method to fit a model to an object of class 'ChemoProtSet' |
| getDatasets-methods | Accessor function for the datasets slot. |
| getFinal-methods | Accessor function for the finalData slot. |
| getInput-methods | Accessor function for the Input |
| getNorm-methods | Accessor function for the normData |
| getParameters-methods | Accessor function for the parameters slot. |
| makeReport | Create report from 'ChemProtSet' object |
| meanSdPlot-methods | MeanSd plot for objects of class ChemoProtSet |
| pcaPlot-methods | PCA of the main data sets contained in a object of class... |
| plot.ChemoProtSet | Default plot for objects of class ChemoProtSet |
| processedExample | Processed Peptide Intensity data set for Doscheda |
| removePeptides-methods | Method to remove peptides from input data of an object of... |
| replicatePlot-methods | Plot replicates between concentrations |
| runDoscheda | Wrapper Function to run the entire Doscheda pipeline |
| runNormalisation-methods | Method to remove peptides from input data of an object of... |
| setData-methods | Method for attaching and standardising data for objects of... |
| setParameters-methods | Method to set parameters for a ChemoProtSet |
| volcanoPlot-methods | Volcano plot for objects of class ChemoProtSet |
