sdrf:knowledge

Answer SDRF specification questions using official spec data files.

11|9|Updated Mar 18, 2026

Search Tags:#templates #ontology #specification #validation #proteomics #columns #sdrf

Ready to run

npx skills add https://github.com/bigbio/sdrf-skills --skill sdrf-knowledge

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: sdrf:knowledge
Source: https://github.com/bigbio/sdrf-skills/tree/main/skills/sdrf-knowledge
Command: npx skills add https://github.com/bigbio/sdrf-skills --skill sdrf-knowledge

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

SDRF specification questions can be confusing without a single, authoritative reference. This skill provides a knowledge base that points to the official SDRF spec data and explains column definitions, template rules, and reserved words so users can answer questions accurately.

Core Features & Use Cases

Answers questions about SDRF format, column naming rules, ontology mappings, modification formats, and reserved words.
Serves as background knowledge for all other SDRF skills (annotate, validate, convert, etc.).
Continuously reads from the spec data in the submodule to stay current with updates.

Quick Start

Ask SDRF questions about columns, templates, or ontology mappings to get spec-aligned answers.

Frequently Asked Questions about sdrf:knowledge

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

What are the SDRF column naming rules for proteomics templates?▼

SDRF column naming rules define required and optional fields for proteomics templates. This skill reads official spec data from templates.yaml and per-template YAMLs to provide exact column definitions and naming conventions for accurate SDRF formatting.

How do I map ontology terms in an SDRF file?▼

Ontology mappings in SDRF connect metadata columns to controlled vocabulary terms. This skill consults the official TERMS.tsv spec data to deliver precise guidance on valid ontology mappings and modification formats for SDRF submissions.

What reserved words and label types are valid in SDRF format?▼

Reserved words and label types in SDRF format are predefined terms that carry specific structural meaning. This skill references official spec submodule data to identify all valid reserved words and label types permitted within SDRF templates.

Do I need the SDRF specification data to validate my proteomics metadata?▼

Validating SDRF metadata requires checking against the official specification data. This skill serves as background knowledge for other SDRF skills by reading TERMS.tsv and template YAMLs to ensure column definitions and ontology mappings align with current standards.

How does the SDRF specification handle modification formats for proteomics data?▼

SDRF modification formats specify how protein modifications are represented in metadata columns. This skill queries official spec submodule YAML files to provide precise formatting rules and modification standards required for compliant SDRF proteomics submissions.