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bio-spatial-transcriptomics-spatial-data-io

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Load and integrate spatial transcriptomics data.

Data & Analytics#multi-platform#spatial-transcriptomics#spatialdata#spatial-data#squidpy#ann-data
Authorya-way
Version1.0.0
Installs0

System Documentation

What problem does it solve?

Load spatial transcriptomics data from Visium, Xenium, MERFISH, Slide-seq, and other platforms using Squidpy and SpatialData. Read Space Ranger outputs, convert formats, and access spatial coordinates. Use when loading Visium, Xenium, MERFISH, or other spatial data.

Core Features & Use Cases

  • Load Visium, Xenium, MERFISH, and Slide-seq outputs into AnnData objects with spatial coordinates and tissue images.
  • Read Space Ranger outputs, convert formats, and access spatial coordinates using Squidpy and SpatialData.
  • Use as a foundation for downstream spatial analyses, integration, and visualization across platforms.

Quick Start

Load spatial data from a folder containing Visium, Xenium, or MERFISH outputs and obtain an AnnData object with coordinates and images ready for analysis.

Dependency Matrix

Required Modules

None required

Components

Standard package

💻 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: bio-spatial-transcriptomics-spatial-data-io
Download link: https://github.com/ya-way/cytoclaw-skills/archive/main.zip#bio-spatial-transcriptomics-spatial-data-io

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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