Spatial Omics Skills

You navigate a central SKILL.md index to browse available spatial omics skills, then open the specific sub-skill Markdown file containing its workflow instructions. This provides immediate access to actionable steps for tasks like MOSCOT mapping or PyVista 3D visualization.

It requires a root SKILL.md frontmatter defining the skill name and description, plus optional sub-skill Markdown files with their own frontmatter. No specific dependencies are mandated, making it lightweight for researchers already working within spatial omics environments.

You create a root SKILL.md file with frontmatter defining the name and description, then add optional sub-skill Markdown files for each tool like MOSCOT or PyVista. This structure enables fast navigation from a high-level index to actionable file-level instructions.

The best way is using a centralized spatial omics skill index that catalogs both Spateo and PyVista workflows. It provides practical use cases and links to detailed skill files, enabling fast navigation from high-level discovery to actionable instructions for each specific analysis task.