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track-generation

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Produce RPM-normalized genome tracks from BAM.

Data & Analytics#bam#track-generation#rpm#atac-seq#chip-seq#bigwig
AuthorBIsnake2001
Version1.0.0
Installs0

System Documentation

What problem does it solve?

Converts filtered BAM files into browser-ready genome tracks (BigWig), enabling fast visualization and comparison across experiments.

Core Features & Use Cases

  • RPM-normalized tracks: generate tracks scaled to 1M mapped reads for cross-sample comparability.
  • ATAC-seq and ChIP-seq support: automatically apply Tn5 offset for ATAC-seq and omit for ChIP-seq.
  • Interactive visualization: optionally visualize signal around TSS or user-defined regions.
  • Example use: A data analyst wants to QC ATAC-seq samples by generating track visuals for quick inspection in a genome browser.

Quick Start

Provide a filtered BAM file and let the tool generate RPM-normalized BigWig tracks for visualization.

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: track-generation
Download link: https://github.com/BIsnake2001/ChromSkills/archive/main.zip#track-generation

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