PlotCenters {FlowSOM} | R Documentation

## Plot cluster centers on a 2D plot

### Description

Plot FlowSOM nodes on a 2D scatter plot of the data

### Usage

    PlotCenters(fsom, marker1, marker2, MST = TRUE)

### Arguments

`fsom` | FlowSOM object, as generated by `BuildMST`
`marker1` | Marker to show on the x-axis
`marker2` | Marker to show on the y-axis
`MST` | Type of visualization, if 1 plot tree, else plot grid

### Value

Nothing is returned. A 2D scatter plot is drawn on which the nodes of the grid are indicated

### See Also

`PlotStars`,`PlotPies`, `PlotMarker`,`BuildMST`

### Examples

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

       # Plot centers
       PlotCenters(flowSOM.res,"FSC-A","SSC-A")
       PlotCenters(flowSOM.res,2,5)

[Package FlowSOM version 1.12.0 Index]