tree_sampler

This function randomly samples a subset of trees from a posterior
distribution of trees derived from multiple runs of MrBayes.

Computational infrastructure for biogeography, community ecology,
and biodiversity conservation (Daru et al. 2020) <doi:10.1111/2041-210X.13478>.
It is based on the methods described in Daru et al. (2020) <doi:10.1038/s41467-020-15921-6>.
The original conceptual work is described in Daru et al. (2017) <doi:10.1016/j.tree.2017.08.013>
on patterns and processes of biogeographical regionalization. Additionally, the package
contains fast and efficient functions to compute more standard conservation measures
such as phylogenetic diversity, phylogenetic endemism, evolutionary distinctiveness
and global endangerment, as well as compositional turnover (e.g., beta diversity).

Barnabas H. Daru

phyloregion

Biogeographic Regionalization and Macroecology

Piyal Karunarathne

Klaus Schliep

Xiaobei Zhao

Albin Sandelin

Luciano Pataro

tree_sampler function

<dl><dt>wd</dt>
<dd>A path to the working directory with the distributions of
multiple phylogenetic trees.</dd>
<dt>n</dt>
<dd>The desired number of subsets of trees. This defaults to 100.</dd>
<dt>pattern</dt>
<dd>An optional regular expression specifying the file extension.</dd>
<dt>...</dt>
<dd>arguments passed among methods.</dd></dl>

Arguments

Dominic Bennett &amp; Harith Farooq <a href="/link/harithmorgadinho%40gmail.com?package=phyloregion&version=1.0.9" data-mini-rdoc="phyloregion::harithmorgadinho@gmail.com">harithmorgadinho@gmail.com</a>

Author

Subset trees from posterior distribution of trees. — tree_sampler

<dl>

<dt>wd</dt>
<dd>A path to the working directory with the distributions of
multiple phylogenetic trees.</dd>


<dt>n</dt>
<dd>The desired number of subsets of trees. This defaults to 100.</dd>


<dt>pattern</dt>
<dd>An optional regular expression specifying the file extension.</dd>


<dt>...</dt>
<dd>arguments passed among methods.</dd>

</dl>

Dominic Bennett &amp; Harith Farooq <a href='mailto:harithmorgadinho@gmail.com'>harithmorgadinho@gmail.com</a>

tree_sampler: Subset trees from posterior distribution of trees.

Description

Usage

Value

Arguments

Author