What types of biological sequences does this skill support?

The skill supports specialized classes for DNA, RNA, and protein sequences, including features for transcription, translation, and reverse complementation.

Can it help with microbiome data analysis?

Yes, it is highly optimized for microbiome analysis, supporting BIOM file formats, alpha/beta diversity metrics, and ordination methods like PCoA.

Does it provide statistical tests for ecological data?

Yes, it includes permutation-based statistical tests like PERMANOVA, ANOSIM, and the Mantel test for comparing distance matrices.

Which phylogenetic tree formats are supported?

It primarily uses the Newick format for I/O and supports tree construction methods like Neighbor Joining (NJ) and UPGMA.

scikit-bio Bioinformatics

Name: scikit-bio Bioinformatics
Author: Yezez9

byYezez9

0•

Data Science & ML

Performs comprehensive bioinformatics analysis including sequence manipulation, phylogenetics, and microbial ecology statistics.

scikit-bio is a specialized Python library designed for bioinformaticians and researchers to process diverse biological data. This skill empowers Claude to perform complex tasks such as sequence alignment, phylogenetic tree construction, and diversity analysis including alpha/beta metrics and UniFrac distances. Whether you are working with microbiome community data, protein embeddings from language models, or various biological file formats like FASTA and BIOM, this skill provides the domain-specific logic and implementation patterns needed for scientifically rigorous bioinformatics workflows.

Key Features

010 GitHub stars

02Biological sequence manipulation for DNA, RNA, and proteins

03Multivariate statistical testing (PERMANOVA, ANOSIM, Mantel)

04Pairwise and multiple sequence alignment using dynamic programming

05Ecological diversity metrics including Faith's PD and UniFrac

06Phylogenetic tree construction (NJ, UPGMA) and manipulation

Use Cases

01Analyzing microbiome community composition and diversity

02Automating bioinformatics data pipelines and format conversions

03Building evolutionary models through phylogenetic analysis

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent scikit-bio

For use in Claude.ai and ChatGPT