PlotStars {FlowSOM} | R Documentation

## PlotStars

### Description

Plot star charts

### Usage

    PlotStars(
      fsom,
      markers = fsom$map$colsUsed,
      colorPalette = FlowSOM_colors,
      list_insteadof_ggarrange = FALSE,
      ...
    )

### Arguments

`fsom` | FlowSOM object, as generated by `BuildMST`
`markers` | Markers to plot (will be parsed by GetChannels)
`colorPalette` | ColorPalette to use
`list_insteadof_ggarrange` | If FALSE (default), the plot and the legend are combined by ggarrange. If TRUE, the seperate elements are returned in a list, to allow further customization.
`...` | Additional arguments to pass to `PlotFlowSOM`

### Details

Plot FlowSOM grid or tree, where each node is represented by a star chart indicating median marker values

### Value

Nothing is returned. A plot is drawn in which each node is represented by a star chart indicating the median fluorescence intensities. Resets the layout back to 1 plot at the end.

### See Also

`PlotMarker`, `PlotVariable`, `PlotFlowSOM`, `PlotLabels`, `PlotNumbers`, `PlotPies`, `QueryStarPlot`, `PlotSD`

### Examples

    # Read from file, build self-organizing map and minimal spanning tree
    fileName <- system.file("extdata", "68983.fcs", package = "FlowSOM")
    flowSOM.res <- FlowSOM(fileName, compensate = TRUE, transform = TRUE,
                           scale = TRUE, colsToUse = c(9, 12, 14:18))

    # Plot stars indicating the MFI of the cells present in the nodes
    PlotStars(flowSOM.res)

[Package FlowSOM version 2.2.0 Index]