plot.linkcomm function

The linkcomm Plotting Function

This function plots various different linkcomm graphs.

## S3 method for class 'linkcomm'
plot(x, type = "", ...)

Arguments

• x: An object of class linkcomm.
• type: A character string specifying the type of plot. Can be one of "summary", "members", "graph", "commsumm", and "dend". See Details below.
• ...: Additional arguments to be passed to plot.

Details

"summary" plots the dendrogram and partition density plot side-by-side;

"members" plots a community membership matrix;

"graph" plots a graph layout of the network with coloured link communities;

"commsumm" plots a bar graph or pie chart summarising community modularity or connectedness for each community;

"dend" plots a dendrogram with coloured link communities.

See the individual plotting functions for details of arguments that can be passed to plot.linkcomm: plotLinkCommSumm, plotLinkCommMembers, plotLinkCommGraph, plotLinkCommSummComm, and plotLinkCommDend.

Returns

Plots to the current device.

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

plotLinkCommSumm, plotLinkCommMembers, plotLinkCommGraph, plotLinkCommSummComm, plotLinkCommDend

Examples

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

## Plot a graph of link communities.
plot(lc, type = "graph")