pt_step1_prepare_inputs: Step 1: Prepare and validate inputs

In Rclade: Automated Deep-Time Phylogenetic Tree Collapsing and Visualization

Step 1: Prepare and validate inputs

Description

Reads tree from file (if path), validates structure, converts units, checks for large trees, and handles cladogram mode.

Usage

pt_step1_prepare_inputs(
  tree,
  tree_index,
  multi_tree_mode,
  rank,
  unit,
  layout,
  triangle_mode,
  space_mode,
  add_timescale,
  groups,
  clade,
  overwrite,
  ignore_branch_length,
  low_memory
)

Value

A named list with:

tree	validated phylo object
unit	resolved time unit
branch_length_mode	"branch.length" or "none"
add_timescale	possibly modified

Rclade documentation built on Sept. 26, 2026, 5:07 p.m.