visualization-workflow
CommunityCreate publication-ready genomic visualizations and tracks.
Personal & Entrepreneur#visualization#genomics#heatmaps#publication figures#deepTools#IGV#UCSC tracks
Authorammawla
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill simplifies the process of generating comprehensive, publication-quality visualizations for ENCODE genomic data, enabling researchers to interpret and present their findings effectively.
Core Features & Use Cases
- Heatmaps and Profiles: Generate clustered heatmaps and average signal profiles for ChIP-seq, ATAC-seq, and other sequencing data using deepTools.
- Genome Browser Visualizations: Prepare IGV and UCSC browser tracks, screenshots, and track hub configurations for locus-specific and genome-wide inspection.
- Publication Figures: Create high-resolution static plots with consistent styling in R and Python, suitable for scientific publications and presentations.
- Use Case: Visualize H3K27ac enrichment at pancreatic islet enhancers, overlay multiple marks, and prepare figures comparing conditions with precise normalization and color schemes.
Quick Start
Download signal files, compute matrices, and generate heatmaps with deepTools, then prepare IGV snapshots at loci of interest or configure UCSC track hubs for sharing.
Dependency Matrix
Required Modules
deepToolsIGVRpython matplotlibpython seaborn
Components
scriptsreferences
💻 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: visualization-workflow Download link: https://github.com/ammawla/encode-toolkit/archive/main.zip#visualization-workflow Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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