Stable Documentation
Latest Documentation

Phenopacket Mapper

A package to map data from the format in REDCap to the GA4GH Phenopacket schema (v2).

Table of Contents

• Project Description
• Features
• Getting Started
  • Prerequisites
  • Installation
• Features
• Contributing
• License
• Acknowledgements

Project Description

A brief overview of your project and its purpose.

Features

List the key features of your project.

Getting Started

Instructions on how to set up and run your project locally.

Prerequisites

List any software, libraries, or dependencies that need to be installed before setting up the project.

Installation

Step-by-step instructions on how to install and set up your project.

To install your own code run pip install -e . in a terminal

Features

Run pm -h

Usage: pm [-h] {quickstart,mapping,validate} ...

 Phenopacket Mapper (pm) CLI tool.

positional arguments:
  {quickstart,mapping,validate}
                        Available commands
    quickstart          Generate a notebook with sample code.
    mapping             Execute the mapping.
    validate            Validate phenopackets.

options:
  -h, --help            show this help message and exit

Contributing

Guidelines for contributing to your project. Include information about how others can contribute, submit issues, and create pull requests.

License

Specify the license under which your project is distributed.

Acknowledgements

This is a part of the larger effort conducted in the repository GitHub Repository