pairdist: Calculate pairwise distances between nodes
In eliotmiller/ecoPDcorr: Ecologically-informed phylodiversity metrics

Description Usage Arguments Details Value Author(s) See Also Examples

Returns a symmetric matrix containing the pairwise distances between all nodes, or possibly the pairwise distances between tips only.

1	pairdist(phy, type=c("all", "tip"), use.labels=FALSE)

`phy`	A `phylo4` object (or one that inherits from it).
`type`	Should pairwise distances be returned for "all" nodes (default), or only for "tip" nodes?
`use.labels`	(logical) If FALSE, row and column names are the numeric node IDs, otherwise labels will be used (possibly resulting in `NA` names in the case of missing node labels).

TODO

Numeric matrix of distances, with either node IDs or node labels as row and column names.

Jim Regetz (regetz@nceas.ucsb.edu)

ape package functions cophenetic and dist.nodes, on which pairdist is based.

  # all pairwise distances
  pairdist(weeds)

  # pairwise distances between tips, with labels and dim names
  pairdist(weeds, type="tip", use.labels=TRUE)