tree-formatting
OfficialFormat phylogenetic trees with style and clarity.
System Documentation
What problem does it solve?
Phylogenetic tree visualization and formatting with ggtree (R) or iTOL (web). Use when rendering a phylogenetic tree as a figure, choosing tree layout, coloring branches or labels by taxonomy, collapsing clades, displaying support values, or adding overlays to a tree. Do NOT load for tree inference (use protein-phylogeny skill) or domain annotation (future separate skill).
Core Features & Use Cases
- Choose rendering backend (ggtree or iTOL) based on offline vs interactive needs.
- Stepwise workflow to select tree type, collapsing strategy, labeling level, and rooting.
- Templates and guidance for ggtree (collapsed rectangular, collapsed circular) and iTOL (annotation and upload workflows), with gotchas and best practices.
Quick Start
Render a phylogenetic tree with the chosen backend (ggtree or iTOL) and apply taxonomy-based coloring, collapsing, and overlays as guided.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: tree-formatting Download link: https://github.com/MusserLab/lab-claude-skills/archive/main.zip#tree-formatting Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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