plot.immunoMeta: Scatterplot of immunoMeta Structured Clustering Results

In immunoClust: immunoClust - Automated Pipeline for Population Detection in Flow Cytometry

Description

This method generates scatterplot revealing the cluster assignment.

Usage

## S3 method for class 'immunoMeta'
plot(x, pos=c(), main="", plot.childs=TRUE,
plot.unclassified=FALSE, plot.subset=c(), inc.childs=c(), plot.ellipse=TRUE,
plot.all=FALSE, ...)

Arguments

x	An object of class immunoMeta as return by meta.process.
pos	gives the position in the immunoMeta-hierarchy to plot (default=c() plots the root level). pos is an array of indices, which addresses the level of interest. Each level in the immunoMeta-hierarchy has an array of sub-levels and pos is the sequences of indices into these sub-levels.
main	additional title which is concatenated with the position and description path of the plotted level.
plot.subset	an array of indices for the parameter selection to be plotted.
plot.unclassified	if set, the unclassified clusters,i.e clusters not assigned into a sub-level, are plotted rather than the classified clusters.
plot.childs	colours the clusters by the sub-level rather than the clusters themselves. By default colours are assigned by sub-level index repeated in red, green,blue,cyan,magenta,yellow,gray,black
inc.childs	optionally, to restrict to a particular selection of sub-levels to plot.
plot.ellipse	surrounds the cell-cluster center by an ellipse reflecting the meta-cluster deviation
plot.all	plots all sub-levels. Usefull for a full annotation documentation with a pdf file.
...	Further graphical parameters passed to the generic function plot.

Value

Plots the clustering assignment on an appropriated plotting device.

Author(s)

Till Sörensen [e-mail]

See Also

immunoMeta-object

Examples

data(dat.meta)
plot(dat.meta)

immunoClust documentation built on Nov. 8, 2020, 5:19 p.m.