| PlotSD {FlowSOM} | R Documentation |
Plot FlowSOM grid or tree, coloured by standard deviaton.
PlotSD(fsom, marker = NULL, ...)
fsom |
FlowSOM object, as generated by |
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 |
Nothing is returned. A plot is drawn in which each node is coloured depending on its standard deviation
PlotStars, PlotVariable,
PlotFlowSOM, PlotLabels,
PlotNumbers, PlotMarker,
PlotPies, QueryStarPlot
# 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)