Plot adjacency matrix with links grouped and colored by community

This function will generate the network link 'heatmap' with colored dots representing within-community links and black dots between-community links

condor.plot.communities(
  condor.object,
  color_list,
  point.size = 0.01,
  xlab = "SNP",
  ylab = "Gene"
)

Arguments

condor.object	output of either condor.cluster or condor.modularity.max
color_list	vector of colors accepted by col inside the plot function. There must be as many colors as communities.
point.size	passed to cex in the plot
xlab	x axis label
ylab	y axis label

Value

produces a plot output.

Note

For the condor paper http://arxiv.org/abs/1509.02816, I used 35 colors from the "Tarnish" palette with "hard" clustering

References

http://tools.medialab.sciences-po.fr/iwanthue/ for a nice color generator at

Examples

r = c(1,1,1,2,2,2,3,3,3,4,4);
b = c(1,2,3,1,2,4,2,3,4,3,4);
reds <- c("Alice","Sue","Janine","Mary")
blues <- c("Bob","John","Ed","Hank")
elist <- data.frame(red=reds[r],blue=blues[b])
condor.object <- create.condor.object(elist)
condor.object <- condor.cluster(condor.object)
condor.plot.communities(condor.object,
color_list=c("darkgreen","darkorange"),point.size=2,
xlab="Women",ylab="Men")