hicar

What problem does it solve?

This Skill removes the guesswork from running the nf-core/hicar HiCAR pipeline by giving you the exact inputs, flags, and release-specific instructions needed to launch a correct analysis without relying on external documentation.

Core Features & Use Cases

• Release-aware execution: Run the pinned latest release or target a specific pipeline version when you need to match a prior analysis.
• Validated inputs and parameters: Use a strict samplesheet schema, required run arguments, and documented parameter constraints to avoid invalid runs.
• Research workflow support: Process HiCAR sequencing data for chromatin accessibility, enrichment, contact calling, QC, and reporting in one workflow.
• Provenance and outputs: Produce organized results, pipeline reports, and run metadata for reproducibility and downstream review.

Quick Start

Ask the assistant to run the hicar skill on my samplesheet and outdir, using the appropriate profile and any version or engine overrides I specify.