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IQ-TREE randomly resolved multifurcation is not appropriate for DTL reconciliation #5

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moshi4 opened this issue Sep 30, 2021 · 1 comment · Fixed by #58
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moshi4 commented Sep 30, 2021

IQ-TREE randomly resolves the multifurcation of the bootstrap tree (branch length = 0.0000000000).
However, it is assumed that the randomly resolved topology leads to undesirable results such as a significant increase in DTL cost.
Therefore, it may be effective to resolve multifurcation based on the topology of species tree to reduce the DTL cost generation instead of resolving random topology.

When multifurcation is detected in the bootstrap tree, I'd like to consider implementing a method to resolve it based on the topology of species tree.

Multifurcation gene tree sample
Screenshot from 2021-10-01 08-21-26

@moshi4 moshi4 added the enhancement New feature or request label Sep 30, 2021
@moshi4 moshi4 self-assigned this Sep 30, 2021
moshi4 added a commit that referenced this issue Oct 22, 2021
* Add resolve multifurcation function using treerecs

* Add test for resolve multifuracation method
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moshi4 commented Oct 24, 2021

Resolve multifurcation using Treerecs as shown below.

treerecs_result_example

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