Hi Jake, Liam and list, I have used function ring() in APE (see help for ape::phydataplot) to do this. It gives you full control over colours, transparency etc., but you'll have to manually specify the inner and outer radii of each 'donut'.
>From my experience, block colours override the tree branches (the tree disappears if time scale is plotted subsequently), while plotting the time scale before plotting the tree makes it difficult to get the right proportionality between the time scale and the branch lengths. HTH, Roi [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/