linkcomm (version 1.0-14)

plot.linkcomm: The linkcomm Plotting Function

Description

This function plots various different linkcomm graphs.

Usage

# S3 method for 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.

Value

Plots to the current device.

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.

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.

See Also

plotLinkCommSumm, plotLinkCommMembers, plotLinkCommGraph, plotLinkCommSummComm, plotLinkCommDend

Examples

# NOT RUN {
## Generate graph and extract link communities.
g <- swiss[,3:4]
lc <- getLinkCommunities(g)

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