name: metaphlan-profiler description: MetaPhlAn metagenomic profiling skill for species-level community composition allowed-tools:

• Read
• Write
• Glob
• Grep
• Edit
• WebFetch
• WebSearch
• Bash metadata: version: "1.0" category: bioinformatics tags:
  • metagenomics
  • profiling
  • species
  • community

MetaPhlAn Profiler Skill

Purpose

Enable MetaPhlAn metagenomic profiling for species-level community composition.

Capabilities

• Clade-specific marker gene analysis
• Species-level quantification
• Strain-level profiling (StrainPhlAn)
• Unknown species estimation
• Multi-sample heatmaps
• Comparative analysis

Usage Guidelines

• Use latest marker database
• Profile at species level for most analyses
• Apply strain-level analysis when relevant
• Visualize community composition
• Compare across samples and conditions
• Document database versions

Dependencies

• MetaPhlAn4
• StrainPhlAn
• mOTUs

Process Integration

• Shotgun Metagenomics Pipeline (shotgun-metagenomics)