plot_cytopop {cytometree}

Plot the cell count for each population using CytomeTree.

Description

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(s)

Anthony Devaux, Boris Hejblum

Examples

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

# Plot the cell count
plot_cytopop(Annot)