Item: phylogenetics
Rating: 4.6
Author: Implexa

phylogenetics

Build and analyze phylogenetic trees using MAFFT (multiple alignment), IQ-TREE 2 (maximum likelihood), and FastTree (fast NJ/ML). Visualize with ETE3 or…

installs

stars

karma

SkillRank score ↗

4.6/ 10

evaluated by implexa, claude-haiku-4-5 · 2026-06-03

phylogenetics covers sequence alignment (mafft), maximum likelihood tree inference (iq-tree 2, fasttree), and tree visualization via ete3. the skill frames the computational pipeline but lacks complete automation guidance.

structure

5.0

trigger phrases

3.0

procedure

4.0

edge cases

2.0

documentation

5.0

strengths

SKILL.md

Phylogenetics

Overview

Phylogenetic analysis reconstructs the evolutionary history of biological sequences (genes, proteins, genomes) by inferring the branching pattern of descent. This skill covers the standard pipeline:

MAFFT — Multiple sequence alignment

IQ-TREE 2 — Maximum likelihood tree inference with model selection

FastTree — Fast approximate maximum likelihood (for large datasets)

ETE3 — Python library for tree manipulation and visualization

Installation:

# Conda (recommended for CLI tools)
conda install -c bioconda mafft iqtree fasttree
pip install ete3

When to Use This Skill

don't have the plugin yet? install it then click "run inline in claude" again.

phylogenetics

SKILL.md

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