Hi Laura.

`The phytools functions resolveNode and resolveAllNodes could be used.`

`They resolve either a single node in all possible ways; or all nodes in`

`all possible ways, returning a "multiPhylo" object. Note that in the`

`latter case the number of trees can be quite large. From the phytools`

`doc: "For resolveNode applied to a multifurcation with n descendants,`

`the number of resolved trees will be equal to the number of possible`

`rooted trees of n taxa. (For instance, three for a trifurcation, 15 for`

`a quadrifurcation, and so on.) For resolveAllNodes the number of fully`

`resolved trees will be equal to the product of numbers for resolveNode`

`applied to each multifurcation separately. (For instance, 45 for a tree`

`containing one trifurcation and one quadrifurcation.)" To get a random`

`set of resolved trees, rather than all possible trees (because this`

`number can be high), you could start with one multifurcating node in the`

`tree, resolve it in all ways using resolveNode, pick one of those`

`resolutions, then move to the next node & so on. I will try to post a`

`formal solution & then share it to the list.`

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All the best, Liam Liam J. Revell, Associate Professor of Biology University of Massachusetts Boston web: http://faculty.umb.edu/liam.revell/ email: liam.rev...@umb.edu blog: http://blog.phytools.org On 6/21/2017 10:38 AM, Laura Jackson wrote:

Hi all, I am using the ape package to randomly resolve polytomies using 'multi2di' and wondering if there is a way to use this function to get a single output tree file that contains multiple different randomly resolved trees using some number of resamplings? Thanks, -Laura

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