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Colorectal pathology specialist

Skill patolojiAI/pathology-skills-collection/pathology-skills/colorectal-pathology-specialist

Comprehensive clinical pathology toolkit for Claude - skills for CAP/ICCR compliance, TNM staging, synoptic templates, SNOMED coding, tumor board summaries, scientific similarity checking, and reference verification.

Install
npx -y skills add patolojiAI/pathology-skills-collection --skill colorectal-pathology-specialist

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Comprehensive colorectal cancer pathology workflow combining CAP/ICCR compliance validation, synoptic template generation, TNM staging (AJCC 8th edition), MSI/MMR testing interpretation, mesorectal excision quality (MERCURY) grading, tumor board summaries, and SNOMED coding. Use when the user uploads or pastes a colorectal pathology report (colectomy, low anterior resection, abdominoperineal resection, polypectomy) and asks to "check colorectal report", "validate CAP ColoRectal protocol", "stage this colorectal cancer", "interpret MSI/MMR", "assess TME quality", or any colorectal-cancer-specific pathology task. Supports .pdf, .docx, .txt input in English and Turkish.

The file declares its own license as MIT. That is the author’s claim about this one file, and it is not the same thing as the license GitHub reports for the repository, which is listed with the other numbers below.

SKILL.md

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Colorectal Pathology Specialist

Complete colorectal cancer pathology workflow toolkit combining compliance checking, staging, MSI/MMR reporting, and coding.

When to Use This Skill

Use this skill for:

  • Colorectal cancer pathology report validation
  • Colon and rectal carcinoma specimens (colectomy, polypectomy, TEM)
  • CAP/ICCR compliance checking with severity scoring
  • TNM staging calculation (AJCC 8th edition)
  • MSI/MMR testing interpretation
  • Mesorectal excision quality grading (rectal specimens)
  • Tumor board summary generation
  • SNOMED CT coding assistance

Supported Specimen Types

  • Right hemicolectomy (cecum, ascending colon)
  • Left hemicolectomy (descending colon)
  • Sigmoid colectomy
  • Low anterior resection (rectal)
  • Abdominoperineal resection (rectal)
  • Total mesorectal excision (TME)
  • Polypectomy specimens
  • Transanal excision (TEM/TAMIS)

Key Features

  1. Compliance Checking: Validates against CAP ColoRectal and ICCR Colorectal Cancer protocols
  2. TNM Staging: AJCC 8th edition colorectal staging with pT/pN/M calculation
  3. MSI/MMR Reporting: Microsatellite instability and mismatch repair interpretation
  4. Mesorectal Quality: TME quality grading (complete/nearly complete/incomplete)
  5. Template Generation: Colon and rectal specimen synoptic templates
  6. Tumor Board Summaries: Concise 3-5 line MDT presentation format
  7. SNOMED Coding: Colorectal-specific code suggestions

Reference Files

When processing reports, reference these files on-demand (DO NOT load at startup):

  • Diagnosis guidelines: references/diagnosis/colorectal_resection.md
  • Macroscopy guidelines: references/macroscopy/colorectal_macroscopy.md
  • TNM staging: ../../shared-references/staging/tnm_stage_calculator.md
  • Synoptic templates: ../../shared-references/templates/synoptic_templates.md
  • SNOMED codes: ../../shared-references/coding/snomed_ct_codes.md

Usage Examples

# Validate report compliance
claude "Check this colorectal report using colorectal-pathology-specialist" < report.txt

# Generate staging
claude "What stage is pT3 N1b M0 for colorectal using colorectal-pathology-specialist"

# Create template
claude "Generate rectal TME template using colorectal-pathology-specialist"

# MSI interpretation
claude "Interpret MLH1 loss, PMS2 loss, MSH2 intact, MSH6 intact using colorectal-pathology-specialist"

Processing Instructions

When analyzing colorectal pathology reports:

  1. Identify request type (compliance check, staging, template, MSI interpretation, summary, coding)
  2. Read relevant reference file on-demand based on request
  3. Process the report using appropriate guidelines
  4. Generate output in requested format
  5. DO NOT load all reference files upfront

Compliance Scoring

Use severity-based weighting:

  • Critical elements (tumor size, grade, margins, CRM, nodes, MSI): -15 points each
  • Major elements (LVI, PNI, tumor deposits, perforation): -5 points each
  • Minor elements (tumor location, distance from margins): -2 points each

Scoring: 90-100 (Compliant) | 70-89 (Minor issues) | 50-69 (Major issues) | <50 (Critical)

Cross-Validation Checks

Always validate:

  • pT category vs tumor invasion depth
  • pN category vs positive node count
  • Stage group vs pT/pN/M combination
  • CRM status (rectal) vs margin measurements
  • MSI status vs MMR immunohistochemistry pattern

Language Support

Supports English and Turkish - detect from user prompt and use appropriate template file.

Note: This is a minimal skill definition. Large reference files are loaded on-demand only when processing requests, not at skill startup.

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