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Running PharmCAT

PharmCAT requires Java 1.8 or newer.

• Running PharmCAT

for more technical detail about running the individual parts

• Running the NamedAlleleMatcher
• Running the Reporter

Documentation

• VCF Requirements
• Preparing the VCF Files
• NamedAlleleMatcher 101
• NamedAlleleMatcher 201

Contributing

This section is only applicable to those wanting to contribute to the PharmCAT codebase.

• Tooling
• Java Coding Conventions
• How to Git
• Building PharmCAT

Join us in the PharmCAT Slack.

Important Links & Data

• CPIC Site
• CPIC Guideline Publications
• List of PharmGKB annotations of CPIC guidelines

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