snakemake-workflow-manager
Snakemake workflow management skill for rule-based pipeline execution
npx skills add a5c-ai/babysitter --skill snakemake-workflow-manager --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# 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)
- Purpose
- Capabilities
- Usage Guidelines
- Dependencies
- Process Integration
What does the snakemake-workflow-manager skill do?
Snakemake workflow management skill for rule-based pipeline execution
How do I install it?
Run `npx skills add a5c-ai/babysitter --skill snakemake-workflow-manager --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From a5c-ai/babysitter, a repository with 1,642 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.