Atlas / Skills / jimmc414 / Clinical Reports

Clinical ReportsSAFE

skills/jimmc414/clinical-reports

Kosmos: An AI Scientist for Autonomous Discovery - An implementation and adaptation to be driven by Claude Code or API - Based on the Kosmos AI Paper - https://arxiv.org/abs/2511.02824

Verdict
SAFE
Grade
B
Trust score
89 /100
Version
—
Hosts
—
License
—
Stars
595
01

Overview

From the repository's own README, as read at the audited commit. Badges and raw HTML are left out.

Overview

Comprehensive skill for writing clinical reports including case reports, diagnostic reports, clinical trial reports, and patient documentation. Provides full support with templates, regulatory compliance, and validation tools.

What's Included

📋 Four Major Report Types

  1. Clinical Case Reports - CARE-compliant case reports for medical journal publication
  2. Diagnostic Reports - Radiology (ACR), pathology (CAP), and laboratory reports
  3. Clinical Trial Reports - SAE reports, Clinical Study Reports (ICH-E3), DSMB reports
  4. Patient Documentation - SOAP notes, H&P, discharge summaries, consultation notes

📚 Reference Files (8 comprehensive guides)

  • case_report_guidelines.md - CARE guidelines, de-identification, journal requirements
  • diagnostic_reports_standards.md - ACR, CAP, CLSI standards, structured reporting systems
  • clinical_trial_reporting.md - ICH-E3, CONSORT, SAE reporting, MedDRA coding
  • patient_documentation.md - SOAP notes, H&P, discharge summary standards
  • regulatory_compliance.md - HIPAA, 21 CFR Part 11, ICH-GCP, FDA regulations
  • medical_terminology.md - SNOMED-CT, LOINC, ICD-10, CPT codes
  • data_presentation.md - Clinical tables, figures, Kaplan-Meier curves
  • peer_review_standards.md - Review criteria for clinical manuscripts

📄 Templates (12 professional templates)

  • case_report_template.md - Structured case report following CARE guidelines
  • soap_note_template.md - SOAP progress note format
  • history_physical_template.md - Complete H&P examination template
  • discharge_summary_template.md - Hospital discharge documentation
  • consult_note_template.md - Specialist consultation format
  • radiology_report_template.md - Imaging report with structured reporting
  • pathology_report_template.md - Surgical pathology with CAP synoptic elements
  • lab_report_template.md - Clinical laboratory test results
  • clinical_trial_sae_template.md - Serious adverse
Read from source at commit 9be77d361822OBSERVED · 2026-10-14
02

What it tells the agent

The instruction file, verbatim from the audited commit — this is the text the model reads, and the surface the audit's instruction layer examines. Quoted here so you can judge it without cloning anything.

---
name: clinical-reports
description: "Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools."
---

# Clinical Report Writing

## Overview

Clinical report writing is the process of documenting medical information with precision, accuracy, and compliance with regulatory standards. This skill covers four major categories of clinical reports: case reports for journal publication, diagnostic reports for clinical practice, clinical trial reports for regulatory submission, and patient documentation for medical records. Apply this skill for healthcare documentation, research dissemination, and regulatory compliance.

**Critical Principle: Clinical reports must be accurate, complete, objective, and compliant with applicable regulations (HIPAA, FDA, ICH-GCP).** Patient privacy and data integrity are paramount. All clinical documentation must support evidence-based decision-making and meet professional standards.

## When to Use This Skill

This skill should be used when:
- Writing clinical case reports for journal submission (CARE guidelines)
- Creating diagnostic reports (radiology, pathology, laboratory)
- Documenting clinical trial data and adverse events
- Preparing clinical study reports (CSR) for regulatory submission
- Writing patient progress notes, SOAP notes, and clinical summaries
- Drafting discharge summaries, H&P documents, or consultation notes
- Ensuring HIPAA compliance and proper de-identification
- Validating clinical documentation for completeness and accuracy
- Preparing serious adverse event (SAE) reports
- Creating data safety monitoring board (DSMB) reports

## Core Capabilities

### 1. Clinical Case Reports for Journal Publication

Clinical case reports describe unusual clinical presentations, novel diagnoses, or rare complications. They contribute to medical knowledge and are published in peer-reviewed journals.

#### CARE Guidelines Compliance

The CARE (CAse REport) guidelines provide a standardized framework for case report writing. All case reports should follow this checklist:

**Title**
- Include the words "case report" or "case study"
- Indicate the area of focus
- Example: "Unusual Presentation of Acute Myocardial Infarction in a Young Patient: A Case Report"

**Keywords**
- 2-5 keywords for indexing and searchability
- Use MeSH (Medical Subject Headings) terms when possible

**Abstract** (structured or unstructured, 150-250 words)
- Introduction: What is unique or novel about the case?
- Patient concerns: Primary symptoms and key medical history
- Diagnoses: Primary and secondary diagnoses
- Interventions: Key treatments and procedures
- Outcomes: Clinical outcome and follow-up
- Conclusions: Main takeaway or clinical lesson

**Introduction**
- Brief background on the medical condition
- Why this case is novel or important
- Literature review of similar cases (brief)
- What makes this case worth reporting

**Patient Information**
- Demographics (age, sex, race/ethnicity if relevant)
- Medical history, family history, social history
- Relevant comorbidities
- **De-identification**: Remove or alter 18 HIPAA identifiers
- **Patient consent**: Document informed consent for publication

**Clinical Findings**
- Chief complaint and presenting symptoms
- Physical examination findings
- Timeline of symptoms (consider timeline figure or table)
- Relevant clinical observations

**Timeline**
- Chronological summary of key events
- Dates of symptoms, diagnosis, interventions, outcomes
- Can be presented as a table or figure
- Example format:
  - Day 0: Initial presentation with symptoms X, Y, Z
  - Day 2: Diagnostic test A performed, revealed finding B
  - Day 5: Treatment initiated with drug C
  - Day 14: Clinical improvement noted
  - Month 3: Follow-up examination shows complete resolution

**Diagnostic Assessment**
- Diagnostic tests performed (labs, imaging, procedures)
- Results and interpretation
- Differential diagnosis considered
- Rationale for final diagnosis
- Challenges in diagnosis

**Therapeutic Interventions**
- Medications (names, dosages, routes, duration)
- Procedures or surgeries performed
- Non-pharmacological interventions
- Reasoning for treatment choices
- Alternative treatments considered

**Follow-up and Outcomes**
- Clinical outcome (resolution, improvement, unchanged, worsened)
- Follow-up duration and frequency
- Long-term outcomes if available
- Patient-reported outcomes
- Adherence to treatment

**Discussion**
- Strengths and novelty of the case
- How this case compares to existing literature
- Limitations of the case report
- Potential mechanisms or explanations
- Clinical implications and lessons learned
- Unanswered questions or areas for future research

**Patient Perspective** (optional but encouraged)
- Patient's experience and viewpoint
- Impact on quality of life
- Patient-reported outcomes
- Quote from patient if appropriate

**Informed Consent**
- Statement documenting patient consent for publication
- If patient deceased or unable to consent, describe proxy consent
- For pediatric cases, parental/guardian consent
- Example: "Written informed consent was obtained from the patient for publication of this case report and accompanying images. A copy of the written consent is available for review by the Editor-in-Chief of this journal."

For detailed CARE guidelines, refer to `references/case_report_guidelines.md`.

#### Journal-Specific Requirements

Different journals have specific formatting requirements:
- Word count limits (typically 1500-3000 words)
- Number of figures/tables allowed
- Reference style (AMA, Vancouver, APA)
- Structured vs. unstructured abstract
- Supplementary materials policies

Check journal instructions for authors before submission.

#### De-ide
03

Trust audit

SAFEgrade B · trust 89/100 Nothing in the source contradicts what it says it does. Grade A is reserved for packages that have also passed the behavioural sandbox.

LayerWhat it checksResult
L0Provenance & inventoryPASS
L1Static analysis of the codePASS
L2Instruction surface (what it tells the agent)PASS
L3Class-specific surfacePASS
L4Behavioural (sandbox)SKIPPED

What the source does

Filesystem
none-observed
Network
none-observed
Shell
none-observed
Dependencies
pinned
Secrets in source
none-found

Findings (1)

INFOPrompt injection · prompt.credential_read · CWE-94, CWE-1427
assets/hipaa_compliance_checklist.md:279
- [ ] Access controls (unique user IDs, passwords)
Why it matters. asks the agent to read credentials

Gates applied: no_behavioural_pass.

Audited 2026-10-14 · audit v0.4.1 · source sha 9be77d361822full audit observations/trust-audit/skill/jimmc414__clinical-reports.json · Report an issue / request a re-scan
04

Audit history

Every audit this skill has had.

DateSourceVerdictGradeScoreChange
2026-10-149be77d361822SAFEB89first audit
05

Questions

What does the Clinical Reports skill do?

Kosmos: An AI Scientist for Autonomous Discovery - An implementation and adaptation to be driven by Claude Code or API - Based on the Kosmos AI Paper - https://arxiv.org/abs/2511.02824

Is Clinical Reports safe to install?

The audit found nothing in the source that contradicts what it says it does, and graded it B (89/100). Grade A is held back for packages that have also passed a sandboxed behavioural run, which is why a clean skill reads B.

What can Clinical Reports access on my machine?

The audit observed no filesystem, network or shell use at all in its source.

How current is this page?

The grade is for one exact copy of the source (9be77d361822), read on 2026-10-14. The repository is watched, and a new audit runs when it changes — this is the first audit.

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