integration-scanorama
CommunityBatch-correct slices with Scanorama stitching.
Authorchenyhvvvv
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Batch integration across multiple spatial slices to remove technical variation while preserving biological signal.
Core Features & Use Cases
- Collect and prepare slices, identify common genes, and normalize data.
- Run Scanorama integration to generate a corrected embedding and joint visualization.
- Store results back to slices (e.g., Leiden clustering and embedding) for downstream analysis.
- Use Case: combine two or more slices to compare batch effects and biological variation.
Quick Start
Activate the skill with at least two slices loaded in the session to generate a joint Scanorama embedding.
Dependency Matrix
Required Modules
None requiredComponents
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: integration-scanorama Download link: https://github.com/chenyhvvvv/STAT-agent/archive/main.zip#integration-scanorama Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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