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scientific-microbiome-metagenomics

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Streamlined microbiome metagenomics analytics.

Data & Analytics#deseq2#metagenomics#microbiome#dada2#humann#metaphlan#ancombc
Authornahisaho
Version1.0.0
Installs0

System Documentation

What problem does it solve?

This skill provides a standardized pipeline for microbiome analysis, enabling systematic handling of both 16S rRNA amplicon data and shotgun metagenomics to generate taxonomic profiles, diversity metrics, and functional pathways.

Core Features & Use Cases

  • 16S amplicon analysis: DADA2-based ASV inference and taxonomic assignment.
  • Shotgun metagenomics profiling: Taxonomic and functional profiling using MetaPhlAn and HUMAnN.
  • Diversity and differential abundance: Alpha/beta diversity metrics and differential abundance testing (DESeq2/ANCOM-BC).
  • Functional profiling & CoDA: Functional profiling and compositional data analysis for robust interpretation.
  • Use Case: A microbiome project comparing healthy vs diseased samples with integrated 16S and shotgun data to identify biomarkers and pathways.

Quick Start

Run the microbiome analysis workflow on 16S and shotgun data to generate ASV tables, taxonomic profiles, diversity metrics, differential abundance results, and functional pathways.

Dependency Matrix

Required Modules

None required

Components

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: scientific-microbiome-metagenomics
Download link: https://github.com/nahisaho/satori/archive/main.zip#scientific-microbiome-metagenomics

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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