[R-sig-phylo] dist.nodes

For `ape::dist.nodes()`, how can one match the output matrix rows/columns with the node IDs in the tree (eg., the tip.labels)? I cannot just use `ape::cophenetic()` in my particular situation. The docs for `ape::dist.nodes()` state: ``` … in the case of dist.nodes, the numbers of the tips and

[R-sig-phylo] host ape source code on GitHub?

Hello! I keep running into bugs with the ape R package, and I usually just work around the issues (eg., using another phylogeny R package) because I don’t know of a good way of submitting bug reports to the package developer(s). While http://ape-package.ird.fr/ is