Plot the cell count for each population using CytomeTree.

Usage

plot_cytopop(
  AnnotObj,
  nbpop = 10,
  mincount = 1,
  maxcount = NULL,
  y_axis = c("abs_count", "prop")
)

Arguments

AnnotObj: An object of class Annotation.
nbpop: Number indicating the maximum of population plotted. Default is 10
mincount: Number indicating the minimum of cell count for the populations. Default is 1.
maxcount: Number indicating the maximum of cell count for the populations. Default is NULL i.e no maximum selected.
y_axis: a character string either "abs_count" or "prop" indicating whether the absolute cell count or the relative populations proportions should be plotted. Default is "abs_count".

Author

Anthony Devaux, Boris Hejblum

Examples


# Run CytomeTree
data(DLBCL)
cellevents <- DLBCL[,c("FL1", "FL2", "FL4")]
Tree <- CytomeTree(cellevents, minleaf = 1, t=.1)
#> 
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Annot <- Annotation(Tree,plot=FALSE)

# Plot the cell count
plot_cytopop(Annot)