MetaHQ Packages

MetaHQ is a monorepo that contains three main packages:

metahq-core

The foundational library for the CLI providing data structures and utilities for annotation querying and manipulation.

metahq-cli

A command-line interface built on top of metahq-core, providing easy-to-use commands for retrieving biomedical sample and study annotations.

metahq-build

Data pipeline package for building the MetaHQ database from raw biomedical annotations. The metahq-build package processes annotations from multiple biomedical data sources and assembles them into the MetaHQ data package — a set of BSON annotation databases, ontology relation matrices, and sample/series metadata Parquets consumed by metahq-core and metahq-cli.

Note: This package is designed to only be used by MetaHQ developers, and installed and run from a cloned version of the repository. There is no PyPI release for metahq-build.

Project Status

Package Version Tests
core metahq-core pypi Core Tests
cli metahq-cli pypi CLI Tests
build metahq-build local DB-Build Tests

Open an issue on GitHub if you encounter any issues or have questions.