markersfinder
Flexible marker finding process that wraps Seurat's FindMarkers function for custom group comparisons beyond simple cluster-vs-all analysis. Unlike ClusterMarkers (all-vs-all cluster comparisons), MarkersFinder enables targeted differential expression analysis between specific groups, conditions within cell types, or any custom comparison defined by metadata columns. Automatically performs pathway enrichment analysis on significant markers and generates comprehensive visualizations.
npx skills add majiayu000/claude-skill-registry --skill markersfinder-pwwang-immunopipe-08e556f2 --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.
# MarkersFinder Process Configuration ## Purpose Flexible marker finding process that wraps Seurat's FindMarkers function for custom group comparisons beyond simple cluster-vs-all analysis. Unlike ClusterMarkers (all-vs-all cluster comparisons), MarkersFinder enables targeted differential expression analysis between specific groups, conditions within cell types, or any custom comparison defined by metadata columns. Automatically performs pathway enrichment analysis on significant markers and generates comprehensive visualizations. ## When to Use - **Custom group comparisons**: Compare specific clusters (e.g., c1 vs c3) - **Condition effects within cell types**: Treatment vs control in T cells - **Targeted differential expression**: Focus on biologically meaningful comparisons - **Multi-sample analysis**: Find markers across different samples/batches - **Subset-based comparisons**: Compare cell states within defined populations - **Complex experimental designs**: Multi-condition, multi-factor comparisons **Note**: Use `ClusterMarkers` for standard all-vs-all cluster analysis. Use `MarkersFinder` for custom comparisons. ## Configuration Structure ### Process Enablement ```toml [Marke
- Purpose
- When to Use
- Configuration Structure
- Process Enablement
- Input Specification
- Environment Variables
- External References
- Seurat FindMarkers Parameters
- Enrichment Databases
- Configuration Examples
- Minimal Configuration
- Cluster-to-Cluster Comparison
- Condition Comparison within Cell Type
- Multiple Comparison Cases
What does the markersfinder skill do?
Flexible marker finding process that wraps Seurat's FindMarkers function for custom group comparisons beyond simple cluster-vs-all analysis. Unlike ClusterMarkers (all-vs-all cluster comparisons), MarkersFinder enables targeted differential expression analysis between specific groups, conditions within cell types, or any custom comparison defined by metadata columns. Automatically performs pathway enrichment analysis on significant markers and generates comprehensive visualizations.
How do I install it?
Run `npx skills add majiayu000/claude-skill-registry --skill markersfinder-pwwang-immunopipe-08e556f2 --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.