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Research · Skill

Instrument Data to Allotrope Converter

Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis. Supports auto-detection of instrument types. Outputs include full ASM JSON, flattened CSV for easy import, and exportable Python code for data engineers. Common triggers include converting instrument files, standardizing lab data, preparing data for upload to LIMS/ELN systems, or generating parser code for production pipelines.

  • Ships scripts Phở cannot run yet
Open in Phở

What the skill covers

The sections of its instructions, in order.

  1. 01 Workflow Overview
  2. 02 Quick Start
  3. 03 Output Format Selection
  4. 04 Calculated Data Handling
  5. 05 Validation
  6. 06 Supported Instruments
  7. 07 Detection & Parsing Strategy
  8. Tier 1: Native allotropy parsing (PREFERRED)
  9. Tier 2: Flexible fallback parsing
  10. Tier 3: PDF extraction
  11. 08 Pre-Parsing Checklist
  12. 09 Common Mistakes to Avoid
  13. 10 Code Export for Data Engineers
  14. 11 File Structure
  15. 12 Usage Examples
  16. Example 1: Vi-CELL BLU file
  17. Example 2: Request for code handoff
  18. Example 3: LIMS-ready flattened output
  19. 13 Implementation Notes
  20. Installing allotropy

Reference files

9 files Phở can open while it uses the skill.

  • references/asm_schema_overview.md
  • references/field_classification_guide.md
  • references/flattening_guide.md
  • references/supported_instruments.md
  • requirements.txt
  • scripts/convert_to_asm.py
  • scripts/export_parser.py
  • scripts/flatten_asm.py
  • scripts/validate_asm.py

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Frequently asked questions

What does Instrument Data to Allotrope Converter do?

Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis. Supports auto-detection of instrument types. Outputs include full ASM JSON, flattened CSV for easy import, and exportable Python code for data engineers. Common triggers include converting instrument files, standardizing lab data, preparing data for upload to LIMS/ELN systems, or generating parser code for production pipelines.

Is Instrument Data to Allotrope Converter free to use?

Yes. Instrument Data to Allotrope Converter is published by Anthropic under the Apache 2.0 licence, and you can use it with a free Phở account.

How do I use Instrument Data to Allotrope Converter in Phở?

Press Open in Phở, then Try to apply it to your next message, or add the Bio research set so Phở loads it whenever a request matches.

Does Instrument Data to Allotrope Converter need other tools?

No. It works in a normal Phở chat with what you type or upload. It also ships scripts, which Phở chat cannot run yet; Phở follows its written steps.

Copied unchanged from anthropics/knowledge-work-plugins at commit d900840 and credited to Anthropic, who is not affiliated with Phở. The full instructions and licence text ship with the skill inside Phở.