ChatSpatial
===========
**MCP server for spatial transcriptomics analysis via natural language.**
Analyze your spatial data by chatting with Claude. No coding required.
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<strong>60+ methods</strong> across 15 analysis categories.
Supports 10x Visium, Xenium, Slide-seq, MERFISH, and more.
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.. only:: zh
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<p style="margin: 0; font-size: 1.1rem; color: #1e293b;">
覆盖 <strong>15 类分析的 60+ 方法</strong>。
支持 10x Visium、Xenium、Slide-seq、MERFISH 等。
</p>
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Getting Started
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:gutter: 3
.. grid-item-card:: Quick Start
:link: quickstart
:link-type: doc
:class-card: sd-rounded-3
**Your first analysis**
Load data and start analyzing with natural language.
.. grid-item-card:: Concepts
:link: concepts
:link-type: doc
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**Understand the methods**
When to use which method and why.
.. grid-item-card:: Examples
:link: examples
:link-type: doc
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**See what's possible**
Natural language commands for every analysis type.
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Reference
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.. grid-item-card:: Methods Reference
:link: advanced/methods-reference
:link-type: doc
All 20 MCP tools with parameters
.. grid-item-card:: Configuration
:link: advanced/configuration
:link-type: doc
MCP client configuration
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Support
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- :doc:`advanced/troubleshooting` — Common issues and solutions
- :doc:`advanced/faq` — Frequently asked questions
- `GitHub Issues <https://github.com/cafferychen777/ChatSpatial/issues>`_ — Report bugs
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.. toctree::
:maxdepth: 2
:hidden:
:caption: Getting Started
quickstart
concepts
examples
.. toctree::
:maxdepth: 2
:hidden:
:caption: Reference
advanced/methods-reference
advanced/configuration
.. toctree::
:maxdepth: 1
:hidden:
:caption: Support
advanced/troubleshooting
advanced/faq
