Man pages for Louisahadj/Lentiviral_barcoding
A RShiny application for the visualization and analysis of single cell lineage-tracing data
| BcAbundance | Count barcode abundances per individual and according... |
| calculDiversity | Calucul barcodes diversity |
| CheckValueLengths | Check that each variable has at least one value |
| ColToRowNames | First column as rownames |
| DeleteLevels | Delete levels in a list |
| Launch_myApp | Function launching the app..; |
| ListToDf | Convert a list of several lists to a dataframe |
| LongSubMatrix | Select values and individuals |
| LongToWideSubMatrix | Select samples according user selection on variables and... |
| MakeBarcodeFrequenciesMatrix | Plot cumulative diagram |
| MakeCategoryMatrices | Make catergory matrices |
| MakeCumulativeDiagramMatrix | Plot and create matrix of a cumulative diagram |
| MakeDotPlotMatrix | Make matrix for PlotDotPlot function |
| MakeDuplicatesMatrix | Select values to create duplicates matrix |
| MakeHeatmapMatrix | Make input matrix for heatmap |
| MakeMetadata | Generate your metadata |
| MakePieChartMatrix | Make input matrix for PlotPieChart function |
| MakeRepeatUseMatrix | Make RepeatUse Matrix |
| MakeTernaryMatrix | Create matrix input for the PlotTernaryPlot function |
| NormByBcAbundance | Normalize barcode abundances by their total abundance (by... |
| PlotBarcodeFrequencies | Plot a frequency diagram |
| PlotCategories | Plot a category bias plot |
| plotCategoryCounts | Plot a category counts plot |
| PlotCorrelogram | Plot a correlogram |
| PlotCumulativeDiagram | Plot cumulative diagram |
| PlotDiversity | Plot a boxplot with diversity measures |
| plotDotplot | Plot a dotplot |
| PlotDuplicates | Plot Duplicates |
| PlotHeatmap | Plot a heatmap |
| PlotPieChart | Plot a piechart of the number of shared or specific barcodes |
| plotRepeatUse | Plot a dotplot of barcode abundances between individuals |
| plotTernaryPlot | Plot a ternary plot |
| ReformatQCmatrix | Reformat QC input table |
| SumVars | Create new columns with stitched value names and summed... |
| WideToLong | Transform a wide to long matrix |
