bio-spatial-transcriptomics-spatial-neighbors
CommunityCreate spatial neighbor graphs for tissue data.
Data & Analytics#spatial-transcriptomics#scanpy#graph-construction#adata#squidpy#spatial-neighbors#spatial-graphs
Authorya-way
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Build and analyze spatial neighbor graphs for spatial transcriptomics data, enabling cells/spots to be connected by spatial proximity for downstream analyses.
Core Features & Use Cases
- KNN, Delaunay, and radius-based neighbor graphs computed from spatial coordinates, stored in AnnData as spatial_connectivities and spatial_distances.
- Supports Visium and single-cell layouts with generic coord_type, grid, and custom radii for flexible tissue architectures.
- Use Case: Construct a neighbor graph to study spatial autocorrelation, tissue domains, and neighborhood structure across spots.
Quick Start
Provide your AnnData object and desired neighbor method, and the agent will build and store the spatial neighbor graph for downstream analysis.
Dependency Matrix
Required Modules
None requiredComponents
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-neighbors Download link: https://github.com/ya-way/cytoclaw-skills/archive/main.zip#bio-spatial-transcriptomics-spatial-neighbors Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 471,000+ vetted skills library on demand.