tree_fix_brlen: Take a tree with branch lengths and fix negative or zero...

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

Take a tree with branch lengths and fix negative or zero length branches.

Description

Take a tree with branch lengths and fix negative or zero length branches.

Usage

tree_fix_brlen(
  tree = NULL,
  fixing_criterion = "negative",
  fixing_method = 0,
  ultrametric = TRUE
)

Arguments

tree	A tree either as a newick character string or as a phylo object.
fixing_criterion	A character vector specifying the type of branch length to be fixed: "negative" or "zero" (the number 0 is also allowed).
fixing_method	A character vector specifying the method to fix branch lengths: "bladj", "mrbayes" or a number to be assigned to all branches meeting fixing_criterion
ultrametric	Boolean indicating whether to force ultrametric or not.

Value

A phylo object with no negative or zero branch lengths.

phylotastic/datelife documentation built on June 9, 2024, 6:50 p.m.