instrument-data-to-allotrope

Parses lab-instrument output (PDF, CSV, Excel, TXT) and writes Allotrope Simple Model (ASM) JSON, flattened 2D CSV, and exportable Python parser code.


Type	Claude Skill
Supplier	Anthropic
Availability	GA — distributed via `anthropics/life-sciences` marketplace alongside Claude for Life Sciences (Oct 2025)
Pricing	Free / OSS
Capabilities	Read/Write

How to install

Claude Code — plugin marketplace:

/plugin marketplace add anthropics/life-sciences
/plugin install instrument-data-to-allotrope@life-sciences

Claude.ai — Settings → Capabilities → Skills → Upload skill, using the skill bundle from the anthropics/life-sciences repo.

What it does

Instrument auto-detection, native parsing via the allotropy library with flexible/PDF-table fallback, ASM JSON emission, flattened-CSV emission, ASM validation with strict mode, exportable Python parser code.

Primary use cases: Standardising 40+ instrument types (cell counters, spectrophotometers, plate readers, qPCR, chromatography) for LIMS ingestion, data-lake loading, and downstream analysis.

Notes

Depends on pip install allotropy. Falls back to a flexible parser or PDF table extraction when native parsing fails, with reduced metadata completeness reported. Also bundled in the Anthropic bio-research plugin.

Sources

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