PlotNode {FlowSOM} | R Documentation

## Plot star chart

### Description

Plot a star chart indicating median marker values of a single node

### Usage

    PlotNode(
      fsom,
      id,
      markers = fsom$map$colsUsed,
      colorPalette = grDevices::colorRampPalette(c("#00007F", "blue", "#007FFF", "cyan",
        "#7FFF7F", "yellow", "#FF7F00", "red", "#7F0000")),
      main = paste0("Cluster ", id)
    )

### Arguments

`fsom` | FlowSOM object, as generated by `BuildMST` or the first element of the list returned by `FlowSOM`
`id` | Id of the node to plot (check PlotNumbers to get the ids)
`markers` | Array of markers to use. Default: the markers used to build the tree
`colorPalette` | Colorpalette to be used for the markers
`main` | Title of the plot

### Value

Nothing is returned. A plot is drawn in which the node is represented by a star chart indicating the median fluorescence intensities.

### See Also

`PlotStars`,`PlotNumbers`, `FlowSOM`

### 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),nClus=10)

       # Plot stars indicating the MFI of the cells present in the nodes
       PlotNode(flowSOM.res$FlowSOM,1)

[Package FlowSOM version 1.19.4 Index]