spatial-integrate
OfficialIntegrate and correct spatial omics data.
AuthorTianGzlab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill addresses the challenge of batch effects in multi-sample spatial transcriptomics data, ensuring that biological signals are not obscured by technical variations between samples.
Core Features & Use Cases
- Multi-sample Integration: Combines data from different spatial experiments into a unified dataset.
- Batch Correction: Employs methods like Harmony, BBKNN, or Scanorama to remove technical biases.
- Use Case: Integrate spatial transcriptomics data from multiple donors or experimental batches to identify conserved cell populations and biological pathways across all samples.
Quick Start
Run Harmony to integrate my spatial slices.
Dependency Matrix
Required Modules
scanpyharmonypybbknnscanorama
Components
scriptsreferencesassets
💻 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: spatial-integrate Download link: https://github.com/TianGzlab/OmicsClaw/archive/main.zip#spatial-integrate Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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