name: pharmgkb-annotator description: PharmGKB pharmacogenomics annotation skill for drug-gene interaction assessment allowed-tools:

• Read
• Write
• Glob
• Grep
• Edit
• WebFetch
• WebSearch
• Bash metadata: version: "1.0" category: bioinformatics tags:
  • clinical-genomics
  • pharmacogenomics
  • drug-response
  • cpic

PharmGKB Annotator Skill

Purpose

Provide PharmGKB pharmacogenomics annotation for drug-gene interaction assessment.

Capabilities

• Star allele calling (Stargazer)
• Diplotype determination
• CPIC guideline integration
• Drug recommendation generation
• Clinical annotation lookup
• Dosing guidance extraction

Usage Guidelines

• Call star alleles accurately
• Determine diplotypes from genotypes
• Apply CPIC guidelines for dosing
• Generate actionable recommendations
• Review clinical annotations
• Document guideline versions

Dependencies

• PharmGKB API
• Stargazer
• PharmCAT

Process Integration

• Pharmacogenomics Analysis (pharmacogenomics-analysis)
• Clinical Variant Interpretation (clinical-variant-interpretation)