plotDens {flowDensity}R Documentation

Plot flow cytometry data with density-based colors

Description

Generate a scatter dot plot with colors based on the distribution of the density of the provided channels.

Usage

plotDens(obj, channels,node=NA ,  col, main, xlab, ylab, pch=".", ...)

Arguments

obj

a 'FlowFrame','GatingHierarchy' or 'cellPopulation' object.

channels

a vector of two channel names or their corresponding indices in the 'flow.frame'.

node

Only used if gatingHierarchy is provided as an input.It subtractes the flowFrame from the node of gatingHierarchy. see getNodes() in flowWorkspace.

col

A specification for the default plotting color: see '?par'.

main

an overall title for the plot: see '?plot'

xlab

a title for the x axis: see '?plot'

ylab

a title for the y axis: see '?plot'

pch

Either an integer specifying a symbol or a single character to be used as the default in plotting points: see '?par'.

...

can be used to provide desired arguments for the plot() function used to plot the output results.

Value

a scatter dot plot with density-based colors.

Author(s)

Mehrnoush Malek <mmalekes@bccrc.ca> Jafar Taghiyar <jtaghiyar@bccrc.ca>

Examples


data_dir <- system.file("extdata", package = "flowDensity")
load(list.files(pattern = 'sampleFCS_1', data_dir, full = TRUE))
#Plot CD3 vs. CD19 to see the distribution of cell populations and their density
plotDens(f,c("V450-A","PerCP-Cy5-5-A"))

[Package flowDensity version 1.16.1 Index]