Nextflow Claude Code Plugin

Claude Code skills for Nextflow and nf-core bioinformatics workflows, powered by the Seqera MCP server.

Skills

Skill	Description
install-nextflow	Install or upgrade Nextflow (and Java 17+ via SDKMAN if needed)
create-workflow	Create Nextflow pipelines by composing nf-core modules
run-module	Run Nextflow modules natively using nextflow module commands
launch-workflow	Launch workflow executions on Seqera Platform

Installation

1. Add the marketplace

/plugin marketplace add nextflow-io/claude-plugin

2. Install the plugin

/plugin install nextflow@nextflow-io-claude-plugin

3. Approve the Seqera MCP server

When prompted, approve the Seqera MCP server connection to enable the skills.

Usage

Once installed, use the skills with the nextflow: namespace:

/nextflow:install-nextflow
/nextflow:create-workflow
/nextflow:run-module
/nextflow:launch-workflow

Local Development

To test the plugin locally without installing:

claude --plugin-dir /path/to/claude-plugin

Requirements

• Claude Code CLI
• Nextflow 26.04.0 or later (required for nextflow module and nextflow auth/nextflow launch commands)

License

Apache-2.0