Using PharmCAT

Running PharmCAT:

• Running PharmCAT
• Running the VCF Preprocessor
• Running the full PharmCAT Pipeline
• Running PharmCAT in Docker
• Multi-Sample Analysis
• Calling CYP2D6
• Calling HLA

Input file specifications:

• VCF Requirements
• Outside Call Format

Contributing

We welcome contributions from anyone willing to help improve PharmCAT.

If you notice a bug in PharmCAT, have an idea for a new feature, or just have a question about how PharmCAT works, please submit an issue on GitHub.

If you want to make a code contribution to the project please checkout the code repo and read the developer wiki for information about our development process.

Important Links & Data

• CPIC Site
• CPIC Guideline Publications
• PharmGKB Site
• List of PharmGKB clinical guideline annotations

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