bio-spatial-transcriptomics-spatial-proteomics
CommunityMap spatial proteomics with integrated analytics.
Authorya-way
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Analyzes spatial proteomics data from CODEX, IMC, and MIBI to enable accurate cell segmentation, protein phenotyping, and robust spatial relation analyses, facilitating integrated insights with transcriptomics.
Core Features & Use Cases
- Load multiplexed spatial proteomics data into AnnData, normalize marker intensities, and perform cell phenotyping with gating or clustering.
- Build spatial neighborhood graphs and quantify cell-cell interactions, neighborhoods, and spatial domains across multiple FOVs.
- Integrate proteomics with transcriptomics where matched data exist, enabling cross-modality comparison and visualization.
Quick Start
Load a CODEX/IMC/MIBI spatial proteomics dataset, preprocess, phenotype cells, and analyze spatial interactions to generate cell-type maps.
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-proteomics Download link: https://github.com/ya-way/cytoclaw-skills/archive/main.zip#bio-spatial-transcriptomics-spatial-proteomics Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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