nextflow-workflow-engine

What problem does it solve?

This Skill simplifies the creation and execution of complex, reproducible scientific workflows, especially in bioinformatics, by managing dependencies, parallelization, and execution across diverse computing environments.

Core Features & Use Cases

• Workflow Definition: Define computational steps as containerized processes connected by data channels.
• Scalable Execution: Run workflows on local machines, HPC clusters (SLURM), or cloud platforms (AWS, GCP, Azure) with minimal configuration changes.
• Reproducibility: Ensures consistent results through containerization and explicit dependency management.
• Use Case: A researcher needs to process thousands of RNA-seq samples. They can use this Skill to define a pipeline that automatically trims reads, aligns them to a reference genome, and counts gene expression, distributing the computation across a SLURM cluster.

Quick Start

Run the example 'hello.nf' pipeline to see a basic Nextflow workflow in action.