spatial-communication
OfficialAnalyze cell-cell communication in spatial data.
Education & Research#bioinformatics#ligand-receptor#cell communication#spatial transcriptomics#spatial biology#cellphoneDB#liana
AuthorTianGzlab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the complex and time-consuming process of identifying ligand-receptor interactions between spatially co-localized cell types in spatial transcriptomics data, which would otherwise require days of manual work.
Core Features & Use Cases
- Automated L-R Scoring: Utilizes multiple methods (LIANA+, CellPhoneDB, FastCCC, CellChat) to score ligand-receptor interactions.
- Spatial Context Integration: Filters interactions based on spatial proximity of cell types.
- Built-in Database: Includes a curated ligand-receptor database for human and mouse.
- Use Case: Analyze potential signaling pathways between tumor and immune cells in a tissue sample, identifying key communication networks that could be targeted therapeutically.
Quick Start
Use the spatial-communication skill to analyze cell communication using the default LIANA+ method on the provided preprocessed.h5ad file.
Dependency Matrix
Required Modules
scanpysquidpyliana
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: spatial-communication Download link: https://github.com/TianGzlab/OmicsClaw/archive/main.zip#spatial-communication Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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