Optimization read.mcmctree #60
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R/MCMCTree.R
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| flag_ultrametric <- is.ultrametric(obj@phylo, option=2) || is.ultrametric(obj@phylo) | ||
| if (force.ultrametric && flag_ultrametric){ | ||
| message("This tree is not ultrametric, and you has set force.ultrametric to TRUE, so the tree will be converted to ultrametric automatically!") | ||
| obj <- force.ultrametric(obj) |
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cannot find the force.ultrametric function.
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Sorry， It should be as.ultrametric
… optimization_read.mcmctree
|
Thank you, this read.mcmctree() function solved my problem perfectly. |
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Description
as mention in issue #13 , The branching time can be calculated via
branching.timesof ape. But it is should be under the assumption that the tree is ultrametric.But how to convert it to ultrametric if the tree is not ultrametric. This blog shared some methods. In the request, I used
extendmethod. I think other methods should be discussed.Related Issue
Example