phylogeny

I want to modify the properties of the leaves in a dendrogram produced from plot of an hclust object. Minimally, I want to change the colors, but any help you can provide will be appreciated. I did try to google the answer, but but every solution that I saw seemed alot harder than what I would have guessed. A while ago, Joris Meys kindly provided me with this snippet of code that changes the color of leaves. Modify it to reflect your attributes. clusDendro <- as.dendrogram(Clustering) labelColors <- c("red", "blue", "darkgreen", "darkgrey", "purple") ## function to get colorlabels colLab <-

I'm trying to use haploNet function of {pegas} to plot a haplotype network, but i`m having trouble putting equal haplotypes from different populations in a same piechart. I can build a haplotype net with the following script: x <- read.dna(file="x.fas",format="fasta") h <- haplotype(x) net <- haploNet(h) plot(net) I'd like to set in the dnabin data the label of the original population of each taxa, so i could have piecharts of different colors (of haplotypes from different populations) in the resulting network. I'd like also to remove overlapping circles in the resulting haplotype network.