I have just submitted a new version of phytools (0.5-20) to CRAN. Obviously, it may not be accepted immediately by the CRAN gatekeepers - but, if not, hopefully we can get it online within the next few days. In the meantime, this version can also be installed directly from GitHub as follows:
library(devtools) ## devtools must be installed install_github("liamrevell/phytools")
Updates from the previous CRAN version of phytools include, but are perhaps not restricted to:
read.newickto permit arguments to be passed by the user to
Update to the traitgram plotting function
phenogramto permit it to be used with
nodelabels, etc. from ape.
phenogramto invisibly return the coordinates of the plotted tips.
A new function (
rootedge.to.singleton) which converts a tree with a root edge to one with singleton nodes; and updates to
nodeheightto include the root edge length.
Some updates to the S3 plotting methods for objects of class
Some changes to the argument default values in
A version of
dotTreefor discretely valued characters (using different colors for different character states.
Here's a quick demo of the new phytools plotting function
##  '0.5.20'