Babysitter tmb-msi-calculator
Tumor mutation burden and microsatellite instability calculation skill for immunotherapy biomarkers
install
source · Clone the upstream repo
git clone https://github.com/a5c-ai/babysitter
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/a5c-ai/babysitter "$T" && mkdir -p ~/.claude/skills && cp -r "$T/library/specializations/domains/science/bioinformatics/skills/tmb-msi-calculator" ~/.claude/skills/a5c-ai-babysitter-tmb-msi-calculator && rm -rf "$T"
manifest:
library/specializations/domains/science/bioinformatics/skills/tmb-msi-calculator/SKILL.mdsource content
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)