Description Usage Arguments Value See Also Examples
Plot FlowSOM nodes on a 2D scatter plot of the data
1 | PlotCenters(fsom, marker1, marker2, MST = TRUE)
|
fsom |
FlowSOM object, as generated by |
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 |
Nothing is returned. A 2D scatter plot is drawn on which the nodes of the grid are indicated
PlotStars
,PlotPies
,
PlotMarker
,BuildMST
1 2 3 4 5 6 7 8 9 10 | # 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)
# Plot centers
PlotCenters(flowSOM.res,"FSC-A","SSC-A")
PlotCenters(flowSOM.res,2,5)
|
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