nextflow-pipeline-executor

# Nextflow Pipeline Executor Skill ## Purpose Provide Nextflow workflow management for reproducible bioinformatics pipelines. ## Capabilities - DSL2 workflow execution - Container integration (Docker/Singularity) - Cloud execution (AWS, GCP, Azure) - Pipeline parameterization - Resume and caching - Execution reports and timelines ## Usage Guidelines - Use DSL2 for modular pipelines - Containerize processes for reproducibility - Configure for target execution environment - Enable resume for fault tolerance - Generate execution reports - Document pipeline versions ## Dependencies - Nextflow - nf-core - Snakemake ## Process Integration - Reproducible Research Workflow (reproducible-research) - Analysis Pipeline Validation (pipeline-validation) - All analysis pipelines