instrument-data-to-allotrope

SKILL.md

Instrument Data to Allotrope Converter

Convert instrument files into standardized Allotrope Simple Model (ASM) format for LIMS upload, data lakes, or handoff to data engineering teams.

Note: This is an Example Skill

This skill demonstrates how skills can support your data engineering tasks—automating schema transformations, parsing instrument outputs, and generating production-ready code.

To customize for your organization:

Modify the references/ files to include your company's specific schemas or ontology mappings

Use an MCP server to connect to systems that define your schemas (e.g., your LIMS, data catalog, or schema registry)

Extend the scripts/ to handle proprietary instrument formats or internal data standards

This pattern can be adapted for any data transformation workflow where you need to convert between formats or validate against organizational standards.

Workflow Overview