Schema for the Open Standards Community for Electron Microscopy (OSC-EM): Defining the electron microscopy-related fields required by the OSCEM standard.
The OSCEM schemas are designed to standardize metadata for electron microscopy, structured modularly to accommodate various methods and use cases. Each module can represent different aspects of an experiment, such as "sample", "instrument", and "author." These modules are combined into a comprehensive schema that defines the required metadata for a specific method. This standard ensures consistency in data collection, facilitates data validation, and enhances comparability between datasets.
To increase compatibility with different formats, we utilize LinkML, which allows us to export the schema to widely used formats.
All schemas are available in YAML format under the directory src/oscemschemas/schema. Files prefixed with oscem refer to collections of subschemas, such as those for single particle analysis. Schemas with more specific names, like "instrument," represent individual subschemas that can be modularly incorporated into oscem_ schemas. By using LinkML generator functions, these schemas can be exported to various formats such as JSON Schema, JSON-LD, OWL, CSV and RDF. For metadata validation, we recommend using the JSON Schema versions.
Current versions are a work in progress, details might change.
Here you can browse all our keywords for single particle analysis with descriptions: https://osc-em.github.io/OSCEM_Schemas/
This project was made with linkml-project-cookiecutter.