bio-isoform-switching
Analyzes isoform switching events and functional consequences using IsoformSwitchAnalyzeR. Predicts protein domain changes, NMD sensitivity, ORF alterations, and coding potential shifts between conditions. Use when investigating how splicing changes affect protein function.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-isoform-switching --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: Salmon 1.10+ Before using code patterns, verify installed versions match. If versions differ: - R: `packageVersion('<pkg>')` then `?function_name` to verify parameters If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # Isoform Switching Analysis Identify isoform switches and predict their functional consequences on protein structure and function. ## IsoformSwitchAnalyzeR Workflow **Goal:** Identify genes where the dominant isoform switches between conditions. **Approach:** Import Salmon quantification, filter low-expression isoforms, and test for isoform usage changes with DEXSeq-based statistics. **"Analyze isoform switching"** -> Import transcript quantification, test for dominant isoform changes, and assess functional consequences. - R: `IsoformSwitchAnalyzeR` (importRdata + isoformSwitchTestDEXSeq) ```r library(IsoformSwitchAnalyzeR) # Import transcript quantification from Salmon salmonQuant <- importIsoformExpression( parentDir = 'salmon_quant/', addIsofomIdAsColumn = TRUE ) # Create switch analysis object switch
- Version Compatibility
- IsoformSwitchAnalyzeR Workflow
- Functional Annotation
- Consequence Analysis
- Visualization
- Significance Thresholds
- Consequence Types
- Related Skills
What does the bio-isoform-switching skill do?
Analyzes isoform switching events and functional consequences using IsoformSwitchAnalyzeR. Predicts protein domain changes, NMD sensitivity, ORF alterations, and coding potential shifts between conditions. Use when investigating how splicing changes affect protein function.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-isoform-switching --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.