Resources
Essential links, repos, and references for CLIF development.
Table of contents
- Core Repositories
- Reference Implementations
- Tools
- Claude/AI Skills
- Publications
- Community
- Slack Channels
- mCIDE Vocabulary Files
- Learning Resources
- Contributing
Core Repositories
| Repository | Description |
|---|---|
| CLIF | Data dictionary, mCIDE vocabularies, workflow docs |
| clifpy | Python package for CLIF data processing |
| CLIF-Project-Template | Standard project structure |
| CLIF-Lighthouse | Web-based validation tool |
| EHR-TO-CLIF | Site ETL examples |
Reference Implementations
| Repository | Description |
|---|---|
| CLIF-MIMIC | MIMIC-IV → CLIF ETL |
| eICU-CLIF | eICU → CLIF ETL |
| CLIF-OMOP | OMOP ↔ CLIF conversion |
Tools
| Tool | Description |
|---|---|
| CLIF-TableOne | Generate Table 1 statistics |
| CLIF Assistant | GPT for ETL guidance (on ChatGPT) |
| synthetic_clif | Generate synthetic CLIF data for testing |
Claude/AI Skills
See the detailed AI Coding Tools comparison page for setup instructions.
| Resource | Description |
|---|---|
| Official CLIF Skills | Consortium-maintained Claude skill (marketplace) |
| kaveriC/claude-setup | Quick Claude Code config + session commands |
| clif_skills_agents | Multi-platform (Python & R, Claude/Kilo/Codex, marimo/Jupyter/Quarto) |
| Marimo Skills | Marimo notebook skills |
| Awesome Claude Skills | Community Claude skills |
Publications
Primary CLIF Paper
Rojas JC, Lyons PG, Chhikara K, et al. A common longitudinal intensive care unit data format (CLIF) for critical illness research. Intensive Care Med 51, 556–569 (2025). doi.org/10.1007/s00134-024-07798-6
Key Findings from Concept Paper
- External validation study: LightGBM mortality model with AUCs 0.73-0.81 across sites
- Temperature trajectory analysis: 4 phenotypes identified consistently across 9 health systems
- Cohort: 111,440 admissions from 9 systems, 39 hospitals (2020-2021)
Community
| Resource | Link |
|---|---|
| CLIF Website | clif-icu.com |
| Slack | CLIF Consortium workspace |
| Epic UserWeb | CLIF Discussion Thread |
| Weekly Calls | Thursdays 2-3 PM CT |
Slack Channels
| Channel | Purpose |
|---|---|
| #general | Announcements and general discussion |
| #clif-code-ecosystem | Coding, tools, AI/Claude discussions |
| #clifpy | clifpy package development |
| #grants | Grant opportunities and proposals |
| #meetings | Call agendas and notes |
mCIDE Vocabulary Files
All controlled vocabularies are available in the CLIF skills repo:
| Table | Vocabulary File |
|---|---|
| vitals | mCIDE/vitals/clif_vitals_categories.csv |
| labs | mCIDE/labs/clif_lab_categories.csv |
| medications | mCIDE/medication_admin_*/clif_medication_*_med_categories.csv |
| respiratory | mCIDE/respiratory_support/ |
| position | mCIDE/postion/clif_position_categories.csv |
Learning Resources
Video Tutorials
- CLIF Overview - Introduction to CLIF
- clifpy Walkthrough - Getting started with clifpy
Example Projects
Browse the CLIF GitHub org for active research projects demonstrating best practices.
Contributing
Want to help improve CLIF?
- Bug reports: Open issues on the relevant repo
- Code contributions: PRs welcome! Follow existing patterns
- Documentation: Help improve these docs or the main CLIF documentation
- ETL sharing: Add your site’s approach to EHR-TO-CLIF
Missing a resource? Let us know in #clif-code-ecosystem!