bd_branch_numbers.RdGive branch numbering for BadiRate
bd_branch_numbers(tree, og = "./Orthogroups.GeneCount.csv", badirate_path = "", plot = FALSE, tree_file = "./branch_ids.tree")
| tree | Ultrametric species tree. |
|---|---|
| og | Orthogroup count file (Orthogroups.GeneCount.csv). |
| badirate_path | Path to BadiRate.pl executable. |
| plot | Logical. If TRUE, plots a tree with corresponding branch numbers. If FALSE, gives the tree in text. |
| tree_file | Where to save the tree, which contains the branch ids. |
Either a plot or text of a labeled phylogenetic tree.