Load SDRF content, detect templates, and validate against PRIDE data.
npx skills add https://github.com/bigbio/sdrf-skills --skill sdrf-review
Please help me install this Agent Skill. Skill: sdrf:review Source: https://github.com/bigbio/sdrf-skills/tree/main/skills/sdrf-review Command: npx skills add https://github.com/bigbio/sdrf-skills --skill sdrf-review
Assists researchers and annotators by guiding a thorough SDRF quality review, merging context loading, template detection, and cross-references to publications and PRIDE submissions to ensure metadata accuracy and consistency.
Load an SDRF file, run the sdrf-validate workflow, and review cross-references to the associated PRIDE publication.
High-intent search queries and answers about installing and using this skill.
Validate proteomics SDRF metadata by loading the file, running the sdrf-validate workflow, and cross-referencing with PRIDE data to generate a comprehensive quality score with actionable discrepancies.
An SDRF quality review detects templates, validates formatting, and cross-references your submission with publications and PRIDE data to ensure metadata accuracy and consistency before generating a final assessment.
Yes, you can review SDRF submissions by reading GitHub PR diffs to load context, run validation, and cross-reference project data to ensure metadata meets publication-ready standards.
Retrieve project and publication context by providing a PXD accession, allowing the review process to cross-reference the SDRF submission with associated PRIDE data and publications for validation.
Yes, SDRF validation requires loading content and detecting templates first to prepare context, ensuring the subsequent validation workflow and cross-references are accurate and comprehensive.
An SDRF quality review provides a comprehensive quality score, identifies discrepancies, and surfaces actionable next steps to guide metadata corrections for publish-ready submissions.
bigbioGenerate SDRF files for proteomics datasets from PXD accessions.
bigbioExplain SDRF column definitions, format rules, and validation errors for proteomics metadata.
bigbioValidate SDRF files for structural, template, and ontology issues.
bigbioFix formatting errors in SDRF files and validate with parse_sdrf.
