alterlab-phylogenetics
CommunityBuild and analyze phylogenetic trees end-to-end.
AuthorAlterLab-IEU
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Automates end-to-end phylogenetic analysis by integrating sequence alignment, tree inference, and visualization to accelerate evolutionary insights.
Core Features & Use Cases
- End-to-end pipeline: Performs MAFFT alignment, ML tree inference with IQ-TREE 2 (or FastTree for large datasets), and visualization with ETE3.
- Domain applications: Suitable for comparative genomics, viral phylodynamics, and protein family evolution studies.
- Extensible workflow: Supports outgroup rooting, bootstrap support, and optional molecular clock dating with guidance and templates.
Quick Start
Run the phylogenetic pipeline on an unaligned FASTA file to produce an aligned set, a tree file, and a visualization.
Dependency Matrix
Required Modules
mafftiqtreeete3
Components
scriptsreferences
💻 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: alterlab-phylogenetics Download link: https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/archive/main.zip#alterlab-phylogenetics Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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