PlotSD {FlowSOM} | R Documentation

## PlotSD

### Description

Plot FlowSOM grid or tree, coloured by standard deviaton.

### Usage

    PlotSD(fsom, marker = NULL, ...)

### Arguments

`fsom` | FlowSOM object, as generated by `FlowSOM`
`marker` | If a marker/channel is given, the sd for this marker is shown. Otherwise, the maximum ratio is used.
`...` | Additional arguments to pass to `PlotFlowSOM`

### Value

Nothing is returned. A plot is drawn in which each node is coloured depending on its standard deviation

### See Also

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

### Examples

    # Read from file, build self-organizing map and minimal spanning tree
    fileName <- system.file("extdata", "68983.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)

    PlotSD(flowSOM.res)

[Package FlowSOM version 2.2.0 Index]