scanpy
NewSmitheryData & Analyticsby davila7
Single-cell RNA-seq analysis. Load .h5ad/10X data, QC, normalization, PCA/UMAP/t-SNE, Leiden clustering, marker genes, cell type annotation, trajectory, for scRNA-seq analysis.
First seen 5/23/2026
Install & Usage
1
Open your MCP config
~/.claude.json2
Add the server config
Add the configuration to "mcpServers": { "scanpy": { "command": "...", "args": [] } }
3
Restart Claude Code
/mcpView source on GitHub
data-&-analytics
Security Audits
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Frequently Asked Questions
What is scanpy?
Single-cell RNA-seq analysis. Load .h5ad/10X data, QC, normalization, PCA/UMAP/t-SNE, Leiden clustering, marker genes, cell type annotation, trajectory, for scRNA-seq analysis.
How to install scanpy?
To install scanpy: open your mcp config (~/.claude.json), then add the config to "mcpServers": { "scanpy": { "command": "...", "args": [] } }. Finally, /mcp in Claude Code.
What is scanpy best for?
scanpy is a mcp categorized under Data & Analytics. It is designed for: data-&-analytics. Created by davila7.