Running

Run and configure nf-core pipelines

Overview

Overview
Learn how to run and configure nf-core pipelines

Advanced topics

Google Colab
Use cloud resources with Google Colab
Managing work directory growth
Manage storage efficiently

Configuration

Configuration options
Configure pipelines
GPU pipelines
Enable and configure GPU acceleration for supported pipeline steps
System requirements
Configure pipelines for your system
Troubleshooting
Troubleshoot nf-core pipeline runs

Reference genomes

Reference genomes
Use reference genomes

Running pipelines

Running pipelines
Run nf-core pipelines

Running pipelines offline

Running pipelines offline
Run pipelines offline

Troubleshooting

Troubleshooting
Troubleshoot common pipeline issues

Tutorials

Configure a pipeline run
A hands-on tutorial for configuring nf-core/demo with environment variables, parameters, and config files