alterlab-clinical-decision

Generate publication-ready clinical decision support documents from cohort data.

58|9|Updated Mar 16, 2026
One-click install
npx skills add https://github.com/AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-clinical-decision
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: alterlab-clinical-decision
Source: https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/clinical-research/alterlab-clinical-decision
Command: npx skills add https://github.com/AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-clinical-decision

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires pandas, numpy, scipy, lifelines, matplotlib, scikit-learn, pyyaml, and includes scripts (resource) and references (resource) and assets (resource) components.

What problem does it solve?

Generate publication-ready clinical decision support (CDS) documents from patient cohorts, enabling researchers to translate biomarker-driven analyses into formal guidelines, reports, and regulatory-grade submissions.

Core Features & Use Cases

  • Cohort Analysis & Reporting: Produce population-level analyses (biomarker strata, survival, adverse events) with publication-ready outputs.
  • Treatment Recommendation Reports: Create evidence-based guidelines with GRADE grading, decision algorithms, and structured summaries.
  • LaTeX/PDF Outputs: Output publication-grade LaTeX/PDF documents with templates and professional formatting.
  • Visualizations & Schematics: Integrate AI-generated figures (flowcharts, diagrams) via the scientific-schematics workflow.
  • Templates & Reproducibility: Leverage templates (cohort analysis, treatment recommendations, clinical pathways) and reproducible scripts for tables, figures, and TikZ diagrams.
  • Regulatory & Compliance Alignment: Ensure HIPAA-safe reporting, confidentiality headers, and regulated document standards.

Quick Start

Create a complete CDS document for a defined cohort using the included templates and workflows.

Frequently Asked Questions about alterlab-clinical-decision

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

FAQPage Schema
How do I generate publication-ready clinical decision support documents from cohort data?

To generate clinical decision support documents from cohort data, this tool processes biomarker-driven analyses, applies GRADE-based recommendations, and outputs publication-ready LaTeX/PDF files with structured tables and figures.

Can I create regulatory-grade submission reports with GRADE-based recommendations and TikZ decision algorithms?

Yes, regulatory-grade submission reports are supported by generating evidence-based GRADE recommendations, TikZ decision algorithms, and reproducible scripts that provide audit trails compliant with confidentiality and reporting standards.

Does this workflow support survival analysis and biomarker integration for clinical decision support?

Biomarker integration and survival analysis are fully supported using pandas, lifelines, and scipy, enabling population-level analyses of biomarker strata and adverse events for clinical decision support reporting.

What is the best way to translate cohort analysis results into LaTeX templates for clinical guidelines?

Translating cohort analysis into clinical guidelines is handled by applying built-in LaTeX templates for cohort analysis and treatment recommendations, producing formatted PDF outputs with executive summaries and publication-ready visuals.

Do I need pandas and lifelines installed to run biomarker-guided cohort analysis for clinical decision support?

Yes, pandas, lifelines, numpy, scipy, and scikit-learn are required dependencies to execute biomarker-guided cohort analysis, generate survival curves, and produce statistical outputs for clinical decision support documents.

Are there limitations when generating HIPAA-safe clinical decision support documents for pharmaceutical research?

Limitations include strict adherence to HIPAA-safe reporting standards, requiring confidentiality headers and regulated document architectures, ensuring all generated clinical decision support outputs maintain compliance for pharmaceutical research submissions.