pick_grove: Pick a grove in the case of multiple groves in a set of...

In phylotastic/datelife: Scientific Data on Time of Lineage Divergence for Your Taxa

Pick a grove in the case of multiple groves in a set of trees.

Description

Pick a grove in the case of multiple groves in a set of trees.

Usage

pick_grove(grove_list, criterion = "taxa", datelife_result)

Arguments

grove_list	A list of vectors of tree indices. Each element is a grove.
criterion	Defaults to criterion = "taxa". Used for chronogram summarizing, i.e., obtaining a single summary chronogram from a group of input chronograms. For summarizing approaches that return a single summary tree from a group of phylogenetic trees, it is necessary that the latter form a grove, roughly, a sufficiently overlapping set of taxa between trees, see Ané et al. (2009) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1007/s00026-009-0017-x")}. In rare cases, a group of trees can have multiple groves. This argument indicates whether to get the grove with the most trees (criterion = "trees") or the most taxa (criterion = "taxa").
datelife_result	A datelifeResult object. Only needed for criterion = "taxa".

Value

A numeric vector of the elements of the picked grove.

phylotastic/datelife documentation built on Jan. 17, 2024, 11:10 p.m.