plotLinkCommSumm function

Plot a Summary of the Link Community Algorithm Output

This function is called by plot.linkcomm to plot a summary of the output of the linkcomm algorithm.

plotLinkCommSumm(x, col = TRUE, pal = brewer.pal(9, "Set1"), right = TRUE, 
                 droptrivial = TRUE, verbose = TRUE, ...)

Arguments

• x: An object of class linkcomm.
• col: Logical, whether to colour link communities in the dendrogram. Defaults to TRUE.
• pal: A character vector describing a colour palette to be used for colouring the link community dendrogram. Defaults to brewer.pal(9, "Set1").
• right: Logical, whether to orient the dendrogram to the right. Defaults to TRUE.
• droptrivial: Logical, whether to not colour communities of size 2. Defaults to TRUE.
• ...: Additional arguments to be passed to plot.
• verbose: Logical, whether to display the progress of colouring the dendrogram on the screen. Defaults to TRUE.

Details

Here we describe the parameters for plotting link community summaries using:

plot(x, type = "summary")

Returns

A summary plot of the output from the linkcomm algorithm.

References

Kalinka, A.T. and Tomancak, P. (2011). linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type. Bioinformatics 27 , 2011-2012.

Author(s)

Alex T. Kalinka alex.t.kalinka@gmail.com

See Also

plot.linkcomm

Examples

## Generate graph and extract link communities.
g <- swiss[,3:4]
lc <- getLinkCommunities(g)

## Plot the modularity of the link communities.
plot(lc, type = "summary")