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hic-normalization

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Balance Hi-C data quickly with ICE normalization.

Data & Analytics#genomics#normalization#data-processing#ice#hic#mcool#cooler
AuthorBIsnake2001
Version1.0.0
Installs0

System Documentation

What problem does it solve?

Automatically detect and normalize Hi-C data. This skill focuses on .mcool inputs, checks existing normalization per resolution (supporting bins/weight), and balances the data using ICE to produce normalized outputs while ensuring genome assembly and chromosome names are consistent.

Core Features & Use Cases

  • Check normalization status per resolution in .mcool files.
  • Balance missing normalizations using ICE to create bins/weight.
  • Verify normalization and generate a concise report with the file, resolution, and status.
  • Outputs a normalized .mcool directory and a normalization_report.txt for downstream analyses.

Quick Start

Provide a sample name and a .mcool file path to run hic-normalization and generate a balanced .mcool along with a normalization_report.txt.

Dependency Matrix

Required Modules

None required

Components

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: hic-normalization
Download link: https://github.com/BIsnake2001/ChromSkills/archive/main.zip#hic-normalization

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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