celltype-annotation-scANVI
CommunityscANVI-based cell-type annotation (spatial)
Authorchenyhvvvv
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Annotates spatial transcriptomics cells by transferring labels from a reference scRNA-seq dataset using scANVI, reducing manual annotation effort and enabling scalable analysis.
Core Features & Use Cases
- Transfer cell type labels from reference to spatial data using scANVI.
- Handle cross-dataset integration with HVG selection, gene matching, and batch correction.
- Use case: annotate a spatial dataset with known cell types to study tissue architecture.
Quick Start
Load a spatial AnnData object and a labeled reference, then call annotate_celltype_scvi with the spatial data and reference to obtain per-cell type predictions.
Dependency Matrix
Required Modules
scanpyanndatascvi-tools
Components
Standard package💻 Claude Code Installation
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Please help me install this Skill: Name: celltype-annotation-scANVI Download link: https://github.com/chenyhvvvv/STAT-agent/archive/main.zip#celltype-annotation-scanvi Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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