Documentation and data validator: http://w3id.org/mixs-6-2-rc/
- This validator does not submit data to any repository
Table of Contents
The Minimal Information about any (x) Sequence (MIxS) standard is a product of the Genomic Standards Consortium (GSC). The GSC has a mission of enabling genomic data integration, discovery, and comparison through international community-driven standards.
This code repository was developed in collaboration between the National Microbiome Data Collaborative (NMDC) and the GSC. It transitions a spreadsheet version of the MIxS standard into a machine-actionable, self-documenting schema adhering to the Linked Data Modelling Language (LinkML).
- Term attributes are harmonized
- Previously informal data constraints are formalized
- Implicit classes are made explicit
- Example data is provided
- Validation tools are provided
This work is provided for consideration as MIxS 6.2 and will be presented at the 23rd Genomic Standards Consortium Meeting in August 2023 in Bangkok, Thailand.
This is a standard Python project that runs on the CLI. No installation is required for
- viewing the schema file
- accessing the schema in other formats
- accessing examples of valid and invalid data in various formats
- accessing reports about modifications applied
- visiting the documentation and ephemeral validator
- software build tools like GNU Make that are often present on many Linux and MacOS systems
- or Windows systems using interoperability layers like WSL
- python >= 3.9
- poetry >= 1.2
- Install Poetry if necessary
- Install dependencies
> poetry install - Run with
> make all
See the open issues for a full list of proposed features (and known issues).
Contributions are what make the open source community such an amazing place to learn, inspire, and create. Any contributions you make are greatly appreciated.
If you have a suggestion that would make this better, please fork the repo and create a pull request. You can also simply open an issue with the tag "enhancement". Don't forget to give the project a star! Thanks again!
- Fork the Project
- Create your Feature Branch (
git checkout -b feature/AmazingFeature) - Commit your Changes (
git commit -m 'Add some AmazingFeature') - Push to the Branch (
git push origin feature/AmazingFeature) - Open a Pull Request
Distributed under the MIT License. See LICENSE.md for more information.
Mark Andrew Miller, National Microbiome Data Collaborative, Lawrence Berkeley National Laboratory