gene-structure-mapper
Visualize gene exon-intron structure
Install with Tessl CLI
npx tessl i github:aipoch/medical-research-skills --skill gene-structure-mapper50
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Gene Structure Mapper
Visualize gene structure with exons and introns.
Usage
python scripts/main.py --gene TP53 --format svgParameters
| Parameter | Type | Default | Required | Description |
|---|---|---|---|---|
--gene | string | - | Yes | Gene symbol (e.g., TP53, BRCA1) |
--format | string | svg | No | Output format (svg, png, pdf) |
--output, -o | string | stdout | No | Output file path |
--domains | flag | false | No | Include domain annotation |
--mutations | string | - | No | Mutation positions to mark (comma-separated) |
Features
- Exon-intron visualization
- Domain annotation
- Mutation marking
Risk Assessment
| Risk Indicator | Assessment | Level |
|---|---|---|
| Code Execution | Python/R scripts executed locally | Medium |
| Network Access | No external API calls | Low |
| File System Access | Read input files, write output files | Medium |
| Instruction Tampering | Standard prompt guidelines | Low |
| Data Exposure | Output files saved to workspace | Low |
Security Checklist
- No hardcoded credentials or API keys
- No unauthorized file system access (../)
- Output does not expose sensitive information
- Prompt injection protections in place
- Input file paths validated (no ../ traversal)
- Output directory restricted to workspace
- Script execution in sandboxed environment
- Error messages sanitized (no stack traces exposed)
- Dependencies audited
Prerequisites
No additional Python packages required.
Evaluation Criteria
Success Metrics
- Successfully executes main functionality
- Output meets quality standards
- Handles edge cases gracefully
- Performance is acceptable
Test Cases
- Basic Functionality: Standard input → Expected output
- Edge Case: Invalid input → Graceful error handling
- Performance: Large dataset → Acceptable processing time
Lifecycle Status
- Current Stage: Draft
- Next Review Date: 2026-03-06
- Known Issues: None
- Planned Improvements:
- Performance optimization
- Additional feature support
- Repository
- aipoch/medical-research-skills
- Commit
f11484c
- Last updated
- Created
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