sdrf:fix

What problem does it solve?

SDRF files often contain formatting mistakes, incorrect UNIMOD accessions, missing ontology prefixes, case inconsistencies, and other issues that prevent successful validation and downstream analysis.

Core Features & Use Cases

• Pattern‑based error detection: Identifies and corrects UNIMOD swaps, ontology prefix gaps, case errors, and more.
• Automated changelog generation: Tracks every modification with row, column, old value, new value, and rationale.
• Integrated validation: Re‑runs parse_sdrf validation after fixes and reports remaining problems.
• Use case: A researcher uploads a draft SDRF from a new proteomics study; the skill cleans the file, ensures it passes validation, and prepares it for submission to ProteomeXchange.

Quick Start

Ask the assistant to fix my SDRF file by providing the file path or pasting its contents.