plot_cytopop: Plot the cell count for each population using CytomeTree.

In chariff/Cytometree: Automated Cytometry Gating and Annotation

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)

chariff/Cytometree documentation built on May 20, 2019, 2:07 p.m.