snakemake
CommunityProduction-grade Snakemake workflows on SLURM HPC.
Authorsahuno
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Snakemake on HPC often requires careful configuration to achieve reproducible, scalable workflows under SLURM with proper container usage, resource management, and error handling. It provides a standardized approach to building, debugging, and running per-sample, DAG-driven bioinformatics pipelines with SLURM executor plugins.
Core Features & Use Cases
- Snakemake 9+ workflow templates with SLURM integration and container support
- Per-sample DAGs, reproducible outputs, run metadata
- Debugging patterns for common Snakemake/SLURM pitfalls, profiling, and dry-run validation
Quick Start
Run Snakemake with a config.yaml and Snakefile on a SLURM cluster to deploy a per-sample DAG with containers and a dry-run.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: snakemake Download link: https://github.com/sahuno/llm_configs/archive/main.zip#snakemake Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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