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What is clinical-rag?

saikirannetha29/clinical-rag — explained in plain English

Analysis updated 2026-05-18

11PythonAudience · researcherComplexity · 3/5Setup · moderate

In one sentence

A Q&A assistant that answers questions about clinical patient notes using retrieval plus Claude, with citations back to the source text.

Mindmap

mindmap
  root((CLINICAL-RAG))
    What it does
      Answers clinical note questions
      Retrieves relevant note chunks
      Cites sources in answers
    Tech stack
      Python and Scikit-learn
      Streamlit UI
      Claude API
    Use cases
      Query discharge summaries
      Test retrieval accuracy
      Prototype healthcare RAG
    Audience
      Clinicians and nurses
      Healthcare researchers

Code map

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What do people build with it?

USE CASE 1

Ask natural-language questions about a set of clinical discharge summaries and get cited answers.

USE CASE 2

Test a TF-IDF retrieval pipeline for domain-specific text search without needing embeddings or a GPU.

USE CASE 3

Prototype a healthcare-oriented retrieval-augmented generation system with synthetic patient data.

USE CASE 4

Evaluate retrieval accuracy against a set of known test queries.

What is it built with?

PythonScikit-learnStreamlitAnthropic Claude APINumPy

How does it compare?

saikirannetha29/clinical-rag2arons/llm-cliabe238/claude-video-plus
Stars111111
LanguagePythonPythonPython
Setup difficultymoderateeasyeasy
Complexity3/52/53/5
Audienceresearcherdeveloperdeveloper

Figures from each repo's GitHub metadata at analysis time.

How do you get it running?

Difficulty · moderate Time to first run · 30min

Requires a free Anthropic API key to enable the LLM-powered answers.

So what is it?

CLINICAL-RAG is a question and answer assistant that lets healthcare workers like clinicians, nurses, and care coordinators ask plain-English questions about patient discharge summaries and get accurate, source-cited answers instead of digging through long unstructured notes themselves. It is built as a retrieval-augmented generation system, meaning it first finds the most relevant pieces of a patient's notes, then hands only those pieces to an AI language model to write the actual answer, rather than letting the model answer purely from its own training. For finding relevant note sections, the project uses a technique called TF-IDF, a method that matches exact terms and phrases rather than general meaning. The README explains this choice by noting that clinical notes are full of precise terminology, like drug names, lab values, and medical codes, where exact matching works better than general-purpose approaches, and it requires no GPU and no extra API calls to run. Once the right note chunks are found, they are sent to Anthropic's Claude language model, which is instructed to answer strictly from those retrieved chunks so it does not invent clinical details that are not actually in the records. The project ships with 8 realistic but entirely synthetic patient discharge summaries covering conditions like diabetes, heart attack, pneumonia, stroke, and hip fracture, written in a style similar to real hospital documentation but containing no real patient data. A built-in evaluation panel tests the retrieval system against a set of sample questions and the README reports 100 percent top-1 retrieval accuracy on that test set. To run it, you install the Python dependencies, run two scripts to generate the sample notes and build the search index, then launch a Streamlit web app. The app needs a free Anthropic API key entered in its sidebar to generate AI answers, though the retrieval evaluation panel works without one.

Copy-paste prompts

Prompt 1
Help me set up CLINICAL-RAG by installing dependencies and building the retrieval index.
Prompt 2
Explain why CLINICAL-RAG uses TF-IDF instead of semantic embeddings for clinical notes.
Prompt 3
Show me how CLINICAL-RAG grounds Claude's answers in retrieved note chunks to avoid hallucination.
Prompt 4
Walk me through running the Streamlit app and adding my own Anthropic API key.

Frequently asked questions

What is clinical-rag?

A Q&A assistant that answers questions about clinical patient notes using retrieval plus Claude, with citations back to the source text.

What language is clinical-rag written in?

Mainly Python. The stack also includes Python, Scikit-learn, Streamlit.

How hard is clinical-rag to set up?

Setup difficulty is rated moderate, with roughly 30min to a first successful run.

Who is clinical-rag for?

Mainly researcher.

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