Is it possible to visualize the resulting trees?

Absolutely. The skill uses the ETE3 Python library to render phylogenetic trees into high-quality images with support for leaf coloring and branch support values.

What tools does the Phylogenetics skill use?

It integrates industry-standard tools including MAFFT for alignment, IQ-TREE 2 and FastTree for tree inference, and ETE3 for visualization and manipulation.

Can this skill handle large genomic datasets?

Yes, the skill includes FastTree integration, which is specifically optimized for approximate maximum likelihood inference on datasets exceeding 1,000 sequences.

Does it support protein sequence analysis?

Yes, the skill supports both nucleotide (DNA/RNA) and amino acid (protein) sequences, with automatic model selection for both types.

Phylogenetics & Evolutionary Analysis

Name: Phylogenetics & Evolutionary Analysis
Author: K-Dense-AI

byK-Dense-AI

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17,327

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データサイエンスとML

Automates the reconstruction and analysis of evolutionary relationships through advanced phylogenetic tree building pipelines.

This skill provides a comprehensive environment for performing biological evolutionary analysis directly within Claude. It streamlines the complex multi-step process of multiple sequence alignment (MAFFT), maximum likelihood tree inference (IQ-TREE 2), and high-speed approximate ML (FastTree). Designed for researchers and bioinformaticians, it facilitates deep insights into microbial genomics, viral phylodynamics, and protein family evolution, complete with professional-grade visualization capabilities using ETE3.

主な機能

01Support for molecular clock analysis and ancestral sequence reconstruction

02Comprehensive tree visualization and manipulation with ETE3

0317,327 GitHub stars

04Automated multiple sequence alignment using MAFFT

05High-accuracy maximum likelihood tree inference with IQ-TREE 2

06Scalable tree building for large datasets via FastTree

ユースケース

01Identifying evolutionary relationships within gene or protein families

02Tracing viral outbreak transmission paths and phylodynamics

03Detecting horizontal gene transfer in microbial genomes

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add k-dense-ai/claude-scientific-skills phylogenetics

For use in Claude.ai and ChatGPT

主な機能

01Support for molecular clock analysis and ancestral sequence reconstruction

02Comprehensive tree visualization and manipulation with ETE3

0317,327 GitHub stars

04Automated multiple sequence alignment using MAFFT

05High-accuracy maximum likelihood tree inference with IQ-TREE 2

06Scalable tree building for large datasets via FastTree

ユースケース

01Identifying evolutionary relationships within gene or protein families

02Tracing viral outbreak transmission paths and phylodynamics

03Detecting horizontal gene transfer in microbial genomes

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add k-dense-ai/claude-scientific-skills phylogenetics

For use in Claude.ai and ChatGPT