# Partition of pair-wise dissimilarity indices using phylogenetic/functional data

### Description

This function computes the partition of pair-wise Sorensen and Jaccard dissimilarity indices described by Baselga (2011, 2012), but adapted for phylogenetic/functional data. The two resulting components are dissimilarities due to turnover and nestednes

### Usage

1 | ```
part.p.tree(comm, tree, index.family = "sorensen")
``` |

### Arguments

`comm ` |
Dataframe or matrix with samples in rows and species in columns. |

`tree ` |
A phylogenetic/functional tree containing all species listed in |

`index.family ` |
The family of dissimilarity indices to be partitionated. Partial match to "sorensen" or "jaccard". |

### Value

A list including three dissimilarity matrices. The nomenclature of the matrices follows Baselga (2012). For the jaccard:

`jac ` |
Jaccard dissimilarity matrix. |

`jtu ` |
The turnover component of the Jaccard index. |

`jne ` |
The nestedness (or richness difference) component of the Jaccard index. |

For the sorensen:

`sor ` |
Sorensen dissimilarity matrix. |

`sim ` |
The turnover component of the Sorensen index (Simpson index). |

`sne ` |
The nestedness (or richness difference) component of the Sorensen index. |

### Author(s)

Adriano Sanches Melo, with part of the code borrowed from `phylosor`

(package picante).

### References

Baselga, A. 2010. Partitioning the turnover and nestdness components of beta diversity. Global Ecology and Biogeography 19, 134-143.

Baselga, A. 2012. The relationship between species replacement, dissimilarity derived from nestedness and nestedness. Global Ecology and Biogeography 21, 1223-1232.

Leprieur, F., C. Albouy, J.D. Bortoli, P.F. Cowman, D.R. Bellwood and D. Mouillot. 2012. Quantifying phylogenetic beta diversity: distinguishing between 'true' turnover of lineages and phylogenetic diversity gradients. PLoS ONE 7(8), e42760. doi:10.1371/journal.pone.0042760

### See Also

`part.m.tree`

for multi-sample partitions.

### Examples

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