ReddRadar
Agent skill
tmb-msi-calculator
Tumor mutation burden and microsatellite instability calculation skill for immunotherapy biomarkers
Install this agent skill to your Project
npx add-skill https://github.com/a5c-ai/babysitter/tree/main/library/specializations/domains/science/bioinformatics/skills/tmb-msi-calculator
Metadata
Additional technical details for this skill
- tags
-
clinical-genomics oncology tmb msi
- version
- 1.0
- category
- bioinformatics
SKILL.md
TMB-MSI Calculator Skill
Purpose
Calculate tumor mutation burden and microsatellite instability for immunotherapy biomarker assessment.
Capabilities
- TMB calculation from VCF
- MSI status determination
- Neoantigen prediction
- HLA typing integration
- Biomarker thresholds
- Clinical report generation
Usage Guidelines
- Calculate TMB with appropriate normalization
- Determine MSI status accurately
- Predict neoantigens for immunotherapy
- Apply clinical thresholds for reporting
- Generate actionable reports
- Document methodology and thresholds
Dependencies
- TMBcat
- MSIsensor2
- MANTIS
Process Integration
- Tumor Molecular Profiling (tumor-molecular-profiling)
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