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Selecting Optimal Minimum Spanning Trees that Share a Topological Correspondence with Phylogenetic Trees

MPS-Authors
http://pubman.mpdl.mpg.de/cone/persons/resource/persons118128

Kalaghatgi,  Prabhav
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society;

http://pubman.mpdl.mpg.de/cone/persons/resource/persons44907

Lengauer,  Thomas
Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society;

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Fulltext (public)

arXiv:1701.02844.pdf
(Preprint), 455KB

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Citation

Kalaghatgi, P., & Lengauer, T. (2017). Selecting Optimal Minimum Spanning Trees that Share a Topological Correspondence with Phylogenetic Trees. Retrieved from http://arxiv.org/abs/1701.02844.


Cite as: http://hdl.handle.net/11858/00-001M-0000-002C-3E81-2
Abstract
Choi et. al (2011) introduced a minimum spanning tree (MST)-based method called CLGrouping, for constructing tree-structured probabilistic graphical models, a statistical framework that is commonly used for inferring phylogenetic trees. While CLGrouping works correctly if there is a unique MST, we observe an indeterminacy in the method in the case that there are multiple MSTs. In this work we remove this indeterminacy by introducing so-called vertex-ranked MSTs. We note that the effectiveness of CLGrouping is inversely related to the number of leaves in the MST. This motivates the problem of finding a vertex-ranked MST with the minimum number of leaves (MLVRMST). We provide a polynomial time algorithm for the MLVRMST problem, and prove its correctness for graphs whose edges are weighted with tree-additive distances.