plotLinkCommMembers function

Plot a Community Membership Matrix for Link Communities

This function is called by plot.linkcomm to plot a community membership matrix for the link communities.

plotLinkCommMembers(x, nodes = head(names(x$numclusters), 10), 
        pal = brewer.pal(11, "Spectral"), shape = "rect", total = TRUE, 
        fontsize = 11, nspace = 3.5, maxclusters = 20)

Arguments

• x: An object of class linkcomm.
• nodes: A character vector specifying the node names that will be included in the plot. Defaults to the 10 nodes that belong to the most communities.
• pal: A character vector describing a colour palette to be used for community-specific colouring. Defaults to brewer.pal(11, "Spectral").
• shape: A character string specifying the shape of matrix entries. Can be one of "rect" or "circle". Defaults to "rect".
• total: Logical, whether to display the number of communities each node belongs to and the number of nodes in each community. Defaults to TRUE.
• fontsize: A numerical value specifying font size for the node names. Defaults to 11.
• nspace: A numerical value specifying how much space to leave at the left for fitting in node names. Defaults to 3.5.
• maxclusters: An integer value specifying the maximum number of communities to display. Defaults to 20.

Returns

A community membership matrix plot.

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 a community membership matrix.
plot(lc, type = "members")