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tmb-msi-calculator

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Tumor mutation burden and microsatellite instability calculation skill for immunotherapy biomarkers

General

What this skill does


# 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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