As promised earlier, I have figured out how to allow the function getCladesofSize (which gets all the subtrees of a phylogeny that cannot be further subdivided into two subtrees of size greater in size than a specified value) to allow for multifurcating, as well as strictly binary, trees. The updated code is here; and I have also posted a new version of phytools (phytools 0.2-64), which can be downloaded and installed from source.
Here's a quick demo of what the function does:
Loading required package: phytools
> # a tree with lots of polytomies
6 phylogenetic trees
Waiting to confirm page change...
Looking at all the trees - we can see that none can be further subdivided into two (or more, for trees polytomous at the root) reciprocally monophyletic groups all containing (in this case) 5 or more tips. Cool.