---

name: qiime2-microbiome-analyzer description: QIIME2 microbiome analysis skill for 16S rRNA profiling and diversity analysis allowed-tools:

• Read
• Write
• Glob
• Grep
• Edit
• WebFetch
• WebSearch
• Bash metadata: version: "1.0" category: bioinformatics tags:
  • metagenomics
  • microbiome
  • 16s
  • diversity graph: domains: [domain:bioinformatics] specializations: [specialization:biomedical-informatics] skillAreas: [skill-area:statistical-analysis, skill-area:data-analysis, skill-area:python-data-pipelines] workflows: [workflow:experiment-design] roles: [role:research-scientist, role:biomedical-engineer]

---

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)