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Budgeted Phylogenetic Diversity on Circular Split Systems
January-March 2009 (vol. 6 no. 1)
pp. 22-29
Bui Quang Minh, CIBIV, Vienna
Fabio Pardi, EBI, Hinxton
Steffen Klaere, Center for Integrative Bioinformatics Vienna , Vienna
Arndt von Haeseler, CIBIV, Vienna
In the last 15 years, Phylogenetic Diversity (PD) has gained interest in the community of conservation biologists as a surrogate measure for assessing biodiversity. We have recently proposed two approaches to select taxa for maximizing PD, namely PD with budget constraints and PD on split systems. In this paper, we will unify these two strategies and present a dynamic programming algorithm to solve the unified framework of selecting taxa with maximal PD under budget constraints on circular split systems. An improved algorithm will also be given if the underlying split system is a tree.

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Index Terms:
Biology and genetics, Optimization
Citation:
Bui Quang Minh, Fabio Pardi, Steffen Klaere, Arndt von Haeseler, "Budgeted Phylogenetic Diversity on Circular Split Systems," IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 6, no. 1, pp. 22-29, Jan.-March 2009, doi:10.1109/TCBB.2008.54
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