OpenST Skills Index
OfficialEnd-to-end Open-ST spatial data workflows.
Authoraristoteleo
Version1.0.0
Installs0
System Documentation
What problem does it solve?
End-to-end Open-ST data processing pipeline for transforming raw BCL/FASTQ data into spatially resolved single-cell expression objects (h5ad).
Core Features & Use Cases
- End-to-end pipeline for processing Open-ST data through all 6 stages, from raw data to analysis-ready objects.
- Provides a complete computational analysis workflow with pipeline steps for barcode preprocessing, transcriptomic alignment, coordinate registration, segmentation, and downstream analysis.
- Use Case: Researchers can convert raw Open-ST sequencing output into an analyzable h5ad object with spatial coordinates for downstream analysis.
Quick Start
Follow the Computational Analysis Pipeline to process your first Open-ST dataset from raw BCL files to an h5ad object.
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: OpenST Skills Index Download link: https://github.com/aristoteleo/PantheonOS/archive/main.zip#openst-skills-index Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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