Man pages for joshpeters/westerlund
A toolkit for single-cell data
| AddModuleScoreScaled | AddModuleScore from Seurat using scaled expression values |
| CalcPCHeuristics | Calculate heuristic metrics to determine optimal number of... |
| Clean | Clean gc but invisible |
| Cluster | Leiden graph-based clustering |
| DefineMarkers | Define markers with 'presto' with additional metrics |
| DetectAmbientRNA | Fit models to cell groups |
| Downsample | Downsample cells evenly across groups |
| FitAmbientModel | Fit model |
| GeneralTheme | General plotting theme |
| Geosketch | Geosketch Seurat object |
| GetDate | Timestamp Get current timestamp |
| grapes-iff-grapes | Set a default value if an object is NOT null |
| grapes-or-or-grapes | Set a default value if an object is null |
| LoessRegression | Loess regression |
| Log2RmInf | Take log2 and remove infinite results |
| NumCellsPerGroup | Calculate number of cells to downsample per group |
| OutlinedDotPlot | Modified version of 'Seurat::Dotplot' with outlined points |
| PlotAmbientRNA | Plot Ambient RNA model fits |
| PrepareGraph | Create igraph-compatible graph and save in Seurat object |
| ReduceDims | Process Seurat seurat.object through PCA |
| RemoveAxes | RemoveAxes |
| RemoveBackgrounds | Remove backgrounds |
| Resample | Sample if length(x) != 1 |
| SavePlot | Save png, pdf and plot object |
| SelectPoints | Select points |
| SpaceAxisTitles | Space axis titles away from plot area |
| StartFutureLapply | Set Future plan to multisession |
| StopFutureLapply | Set Future plan to sequential |
| Timestamp | Timestamp Get current timestamp |
| VarToString | Convert variable to string |
