d3dendrogram: Plot dendrogram to webpage and view.

Description Usage Arguments Details Value Tips

Description

Plot dendrogram to webpage and view.

Usage

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d3dendrogram(d, height = 500, width = 700, rightmargin = 200,
  open = TRUE, ...)

Arguments

d

a dendrogram object

height

pixels, height of the plot.

width

pixels, width of the plot

rightmargin

pixels to reserve on the right side for leaf labels.

open

open the graphic in a browser? (see details).

...

Graphical options, see d3dendro_options.

Details

If open=TRUE, the graphic is opened using the function defined by getOption("viewer"). If no viewer option is specified, utils::browseURL is opened. Specifically, in RStudio this means that the viewer is used.

Value

If open=TRUE, a character string containing the html is invisibly retured. If open=TRUE, a character string containing the html is returned.

Tips

Dendrogram plots with many end-nodes tend to get overlapping labels or (end)nodes. If the number of endnodes is not too large, there are several ways to overcome this.

  • Decrease font size of the nodes (node_font, see d3dendro_options on how to specify)

  • Decrease size of node radius (node_radius, idem)

  • Increase the height of the plot. Use about (2 times font height) times count_terminal_nodes(d).

  • Plot sub-dendrograms in stead of the whole dendrogram. There's only so much detail a screen can display and your eye can observe. Consider plotting subdendrograms or other summaries when dendrograms have many, many nodes.



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