MetaPhlAn metagenomic profiling skill for species-level community composition
Scanned 9/2/2026
Install to Claude Code
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---
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
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-engineer, role:biomedical-engineer]
---
# 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)
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