dismech-references

Validate and repair quoted snippets in disorder YAML files against PubMed and ClinicalTrials records.

50|9|Updated Dec 4, 2025
One-click install
npx skills add https://github.com/monarch-initiative/dismech --skill dismech-references
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: dismech-references
Source: https://github.com/monarch-initiative/dismech/tree/main/.claude/skills/dismech-references
Command: npx skills add https://github.com/monarch-initiative/dismech --skill dismech-references

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

This skill addresses the risk of misquoted or fabricated evidence in the Disorder Mechanisms Knowledge Base (dismech) by validating references against authoritative sources and repairing incorrect or out-of-context snippets.

Core Features & Use Cases

  • Evidence validation: Verifies that each evidence item's snippet actually appears in the cited PubMed abstract or ClinicalTrials.gov entry.
  • Repair & QC: Auto-repairs minor text mismatches and flags unresolved issues for manual review, ensuring high-quality knowledge claims.
  • Use Case: Before committing YAML updates, run this skill to confirm every referenced PMID or ClinicalTrials entry supports the associated claim.

Quick Start

Validate evidence references for a disorder YAML file to ensure snippet-text alignment with the cited source.

Frequently Asked Questions about dismech-references

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

FAQPage Schema
How do I validate PubMed evidence references in YAML files?

Validate PubMed evidence references in YAML files by cross-checking quoted snippets against PubMed abstracts to confirm text alignment. This skill verifies each evidence item's snippet actually appears in the cited record before commit.

What is the best way to auto-repair misquoted evidence snippets in disorder YAML files?

Auto-repair misquoted evidence snippets in disorder YAML files by running this skill to fix minor text mismatches against PubMed or ClinicalTrials records. Unresolved issues are flagged for manual review during the QC workflow.

Can I dry-run evidence validation on ClinicalTrials references before committing?

Dry-run evidence validation on ClinicalTrials references is supported to preview snippet alignment without modifying YAML files. This pre-commit check confirms every cited entry supports its associated claim safely.

Does the linkml-reference-validator handle PubMed and ClinicalTrials references?

The linkml-reference-validator handles PubMed and ClinicalTrials references by verifying that quoted snippets appear in the cited abstracts or entries. It validates PMID and ClinicalTrials references within disorder YAML knowledge-base files.

Why does evidence snippet validation fail on my disorder YAML files?

Evidence snippet validation fails on disorder YAML files when quoted text does not match the cited PubMed abstract or ClinicalTrials record. Mismatches indicate misquoted, out-of-context, or fabricated evidence that requires auto-repair or manual correction.

When do I need to validate evidence references for knowledge-base curation?

Validate evidence references for knowledge-base curation before committing YAML updates to ensure high-quality claims. Run this skill during pre-commit workflows to confirm every referenced PMID or ClinicalTrials entry supports the associated snippet.