I need to calculate phylogenetic diversity (PD) of many different areas. I found some ways to calculate it, but couldn't decide on which way is better. If anybody has any idea about it please let me know.
Tucker et al (2016) wrote a very comprehensive review on the available metrics up to their publication along with all kinds of question that could be answered with what metrics. It is freely available here: Article A guide to phylogenetic metrics for conservation, community ...
Another update on the concept of using phylogenetic information that I find quite useful to understand what kind of metrics you need:
Article The components of biodiversity, with a particular focus on p...
An interesting approach is the diversity measures that proposed Rao in 1986 around a diversity index called the "quadratic entropy." The quadratic entropy can integrate measures of species differences in the extent of biodiversity.
this paper may be useful :
Pavoine, S., Bonsall, M.B., 2010. Measuring biodiversity to explain community assembly: a unified approach. Biological reviews, 1-21.
An exceptionally well thought out approach for computing phylogenetic diversity is in the following paper by Chiu, Jost & Chao which is in press for Ecological Monographs
http://www.esajournals.org/doi/abs/10.1890/12-0960.1
Tucker et al (2016) wrote a very comprehensive review on the available metrics up to their publication along with all kinds of question that could be answered with what metrics. It is freely available here: Article A guide to phylogenetic metrics for conservation, community ...
Another update on the concept of using phylogenetic information that I find quite useful to understand what kind of metrics you need:
Article The components of biodiversity, with a particular focus on p...
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