seuratsubclustering
Performs fine-grained re-clustering on specific subsets of cells (e.g., individual clusters, cell types, or custom subsets). Unlike `Seurat::FindSubCluster` which only finds subclusters within a single cluster, this process performs the complete clustering workflow (PCA, UMAP, FindNeighbors, FindClusters) on any subset of cells defined by metadata filters or cell barcode lists.
npx skills add majiayu000/claude-skill-registry --skill seuratsubclustering-pwwang-immunopipe-17edbf91 --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# SeuratSubClustering Process Configuration ## Purpose Performs fine-grained re-clustering on specific subsets of cells (e.g., individual clusters, cell types, or custom subsets). Unlike `Seurat::FindSubCluster` which only finds subclusters within a single cluster, this process performs the complete clustering workflow (PCA, UMAP, FindNeighbors, FindClusters) on any subset of cells defined by metadata filters or cell barcode lists. ## When to Use - **Cluster heterogeneity analysis**: When initial clustering identifies mixed cell populations within a cluster - **Cell type sub-clustering**: To resolve heterogeneity within annotated cell types (e.g., T cell subsets: CD4+, CD8+, naive, memory, effector) - **Lineage-specific analysis**: To examine substructure within major cell lineages - **Differential sub-populations**: When a cluster contains multiple biologically distinct populations (e.g., NK cells + CD4 T cells) - **Multi-resolution exploration**: To test different clustering granularities on specific cell subsets - **Downstream marker discovery**: When you need markers for sub-populations within larger clusters ## Configuration Structure ### Process Enablement ```toml [SeuratSubC
- Purpose
- When to Use
- Configuration Structure
- Process Enablement
- Input Specification
- Environment Variables
- External References
- Seurat Functions
- tidyseurat::filter()
- Configuration Examples
- Minimal Configuration (Default Case)
- Single Cluster Sub-clustering
- Metadata-Based Sub-clustering (Cell Type)
- Multiple Sub-clustering Cases
What does the seuratsubclustering skill do?
Performs fine-grained re-clustering on specific subsets of cells (e.g., individual clusters, cell types, or custom subsets). Unlike `Seurat::FindSubCluster` which only finds subclusters within a single cluster, this process performs the complete clustering workflow (PCA, UMAP, FindNeighbors, FindClusters) on any subset of cells defined by metadata filters or cell barcode lists.
How do I install it?
Run `npx skills add majiayu000/claude-skill-registry --skill seuratsubclustering-pwwang-immunopipe-17edbf91 --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From majiayu000/claude-skill-registry, a repository with 534 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.