bio-single-cell-splicing
Analyzes alternative splicing at single-cell resolution using BRIE2 for probabilistic PSI estimation or leafcutter2 for cluster-based analysis with NMD detection. Identifies cell-type-specific splicing patterns. Use when analyzing isoform usage in scRNA-seq or finding splicing differences between cell populations.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-single-cell-splicing --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.
## Version Compatibility Reference examples tested with: anndata 0.10+, numpy 1.26+, pandas 2.2+, scanpy 1.10+ Before using code patterns, verify installed versions match. If versions differ: - Python: `pip show <package>` then `help(module.function)` to check signatures If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # Single-Cell Splicing Analysis Analyze alternative splicing at single-cell resolution. ## Tool Selection | Tool | Approach | Strengths | |------|----------|-----------| | BRIE2 | Probabilistic PSI | Handles sparsity, regulatory features | | leafcutter2 | Intron clustering | NMD detection, novel junctions | Note: Avoid Whippet.jl (Julia 1.6.7 only, incompatible with Julia 1.9+) ## BRIE2 Analysis **Goal:** Estimate per-cell PSI values for splicing events with uncertainty quantification. **Approach:** Prepare splicing events from annotation, count reads per cell barcode, then fit a Bayesian variational inference model for probabilistic PSI estimation. **"Analyze splicing in single-cell data"** -> Estimate per-cell inclusion levels for splicing events with uncer
- Version Compatibility
- Tool Selection
- BRIE2 Analysis
- Cell-Type Specific Splicing
- leafcutter2 Analysis
- Pseudobulk Approach
- Interpretation Considerations
- Quality Thresholds
- Related Skills
What does the bio-single-cell-splicing skill do?
Analyzes alternative splicing at single-cell resolution using BRIE2 for probabilistic PSI estimation or leafcutter2 for cluster-based analysis with NMD detection. Identifies cell-type-specific splicing patterns. Use when analyzing isoform usage in scRNA-seq or finding splicing differences between cell populations.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-single-cell-splicing --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 FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 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.