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Babysitter qiime2-microbiome-analyzer

QIIME2 microbiome analysis skill for 16S rRNA profiling and diversity analysis

install
source · Clone the upstream repo
git clone https://github.com/a5c-ai/babysitter
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/a5c-ai/babysitter "$T" && mkdir -p ~/.claude/skills && cp -r "$T/library/specializations/domains/science/bioinformatics/skills/qiime2-microbiome-analyzer" ~/.claude/skills/a5c-ai-babysitter-qiime2-microbiome-analyzer && rm -rf "$T"
manifest: library/specializations/domains/science/bioinformatics/skills/qiime2-microbiome-analyzer/SKILL.md
tags
#microbiome-analysis#16s-rna#diversity-metrics#taxonomic-classification#q2-pipeline
source content

QIIME2 Microbiome Analyzer Skill

Purpose

Enable QIIME2 microbiome analysis for 16S rRNA profiling and diversity analysis.

Capabilities

  • Demultiplexing and denoising (DADA2)
  • Taxonomic classification
  • Alpha diversity metrics
  • Beta diversity analysis
  • Differential abundance testing
  • Phylogenetic analysis

Usage Guidelines

  • Use DADA2 for denoising amplicon data
  • Select appropriate taxonomic classifier
  • Calculate diversity metrics with rarefaction
  • Visualize beta diversity with ordination
  • Test differential abundance appropriately
  • Document pipeline parameters

Dependencies

  • QIIME2
  • DADA2
  • phyloseq

Process Integration

  • 16S rRNA Microbiome Analysis (16s-microbiome-analysis)