hic-normalization
Automatically detect and normalize Hi-C data. Only .cool or .mcool file is supported. All .mcool files are then checked for existing normalization (supports bins/weight only) and balanced if none of the normalizations exist.
npx skills add majiayu000/claude-skill-registry --skill 16-toolbased-hic-normalization --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.
## Overview This skill performs Hi-C data normalization on .mcool files. Main steps include: - Refer to the **Inputs & Outputs** section to verify required files and output structure. - **Check normalization status** per resolution (supports bins/weight columns only). - If a resolution is not normalized, perform normalization with cooler balance (ICE) to create bins/weight. - **Verify normalization** and emit a concise report on the file, resolution, and normalization status. --- ## When to use this skill Use the hic-normalization pipeline when: - You need to ensure that Hi-C data is normalized for downstream analysis. - Your data comes in .cool or .mcool formats, and you want to check or refresh normalization status (ICE normalization). This tool assumes the file already has correct genome assembly and chromosome names. --- ## Inputs & Outputs ### Inputs - Accepted file format: .mcool ### Outputs ```bash ${sample}_hic_norm/ ${sample}_norm.mcool normalization_report.txt # A brief log/report indicating which resolutions were detected, normalized, or skipped. ``` --- ## Decision Tree ### Step 0 — Gather Required Information from the User Before calling any tool, ask the user: 1. Samp
- Overview
- When to use this skill
- Inputs & Outputs
- Inputs
- Outputs
- Decision Tree
- Step 0 — Gather Required Information from the User
- Step 1: Initialize Project
- Notes & Troubleshooting
normalization_report.txt # A brief log/report indicating which resolutions were detected, normalized, or skipped.
What does the hic-normalization skill do?
Automatically detect and normalize Hi-C data. Only .cool or .mcool file is supported. All .mcool files are then checked for existing normalization (supports bins/weight only) and balanced if none of the normalizations exist.
How do I install it?
Run `npx skills add majiayu000/claude-skill-registry --skill 16-toolbased-hic-normalization --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 majiayu000/claude-skill-registry, a repository with 534 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.