plot.immunoMeta {immunoClust} | R Documentation

## Scatterplot of immunoMeta Structured Clustering Results

### 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 till-antoni.soerensen@charite.de

### See Also

`immunoMeta-object`

### Examples

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

[Package immunoClust version 1.22.0 Index]