research-workflow-automation
Installation
SKILL.md
Research Workflow Automation
A skill for automating repetitive research tasks using workflow managers, pipeline tools, and scripting. Covers data pipeline design, experiment tracking, automated reporting, and reproducible research workflows.
Workflow Management Tools
Tool Comparison
| Tool | Language | Best For | Complexity | License |
|---|---|---|---|---|
| Snakemake | Python | Bioinformatics, data pipelines | Medium | MIT |
| Nextflow | Groovy/DSL | Genomics, HPC | Medium | Apache 2.0 |
| Prefect | Python | Data engineering, ML | Medium | Apache 2.0 |
| Airflow | Python | Scheduled ETL pipelines | High | Apache 2.0 |
| Make | Makefile | Simple file-based pipelines | Low | GPL |
| DVC | YAML/CLI | ML experiment tracking | Low | Apache 2.0 |