MetaGEAR

A command-line wrapper for the MetaGEAR Pipeline for high-throughput microbiome metagenomic analysis.

This is a command-line wrapper for the MetaGEAR Pipeline for high-throughput microbiome metagenomic analysis. It provides easy-to-use tools for installing, configuring, and launching the MetaGEAR Pipeline—a Nextflow/NF-Core pipeline that streamlines end-to-end microbiome metagenomic workflows from raw reads to functional annotation.

Prerequisites

• Java 17+
• Nextflow 25+
• Docker or Singularity

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Table of contents

• Installation
• Basic Usage
• Configuration