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Snakemake workflow manager

Skill a5c-ai/babysitter/library/specializations/domains/science/bioinformatics/skills/snakemake-workflow-manager

Snakemake workflow management skill for rule-based pipeline executionFrom its SKILL.md

Install
npx -y skills add a5c-ai/babysitter --skill snakemake-workflow-manager

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SKILL.md

1.4 KB, 151 tokens by cl100k_base, as published. Nobody here has run it

Snakemake Workflow Manager Skill

Purpose

Enable Snakemake workflow management for rule-based pipeline execution.

Capabilities

  • DAG-based workflow execution
  • Cluster/cloud execution
  • Conda environment management
  • Checkpointing and resume
  • Benchmark collection
  • Report generation

Usage Guidelines

  • Define rules with clear inputs/outputs
  • Use Conda for environment management
  • Configure for cluster execution
  • Enable checkpointing for large workflows
  • Collect benchmarks for optimization
  • Generate workflow reports

Dependencies

  • Snakemake
  • Conda
  • Bioconda

Process Integration

  • Reproducible Research Workflow (reproducible-research)
  • Analysis Pipeline Validation (pipeline-validation)

What ships with it

Read from the repository

Just SKILL.md. No reference files, no scripts.

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