medquerypy 0.2

A Python tool to fetch research papers from PubMed.

📚 MedQueryPy - Fetch PubMed Research Papers with AI

🚀 MedQueryPy is a Python package designed to fetch research papers from PubMed and filter those with non-academic authors affiliated with pharmaceutical or biotech companies. Now, with AI-powered author classification and research paper summarization, the package is smarter than ever!

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📌 Features

✅ Fetches research papers using the PubMed API
✅ Identifies papers with non-academic authors from biotech/pharma companies using AI
✅ Uses GPT-4 to summarize research papers 📄
✅ Saves results in CSV format
✅ Provides a command-line interface & Python module
✅ Poetry-based dependency management
✅ Optimized for fast and efficient queries

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🛠 Installation

You can install MedQueryPy via pip:

pip install medquerypy

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🚀 Usage

🔍 Import as a Python Module

from medquerypy import PubMedFetcher

# Define a search query
query = "COVID-19 vaccines"

# Fetch paper IDs
paper_ids = PubMedFetcher.fetch_pubmed_papers(query)
print("Paper IDs:", paper_ids)

# Fetch details of each paper
results = [PubMedFetcher.get_paper_details(pid) for pid in paper_ids]
print("Paper Details:", results)

# Check if an affiliation is non-academic using AI
affiliation = "XYZ Biotech"
print("Is non-academic:", PubMedFetcher.is_non_academic(affiliation))

# Summarize a research paper using AI
abstract = "This study investigates the effect of COVID-19 vaccines on different age groups..."
summary = PubMedFetcher.summarize_paper(abstract)
print("Summary:", summary)

# Save results to CSV
PubMedFetcher.save_to_csv(results, "output.csv")
print("Results saved to output.csv")

📂 Use as a Command-Line Tool

Fetch papers and print results:

get-papers-list "COVID-19 vaccines"

Save results to a CSV file:

get-papers-list "COVID-19 vaccines" -f results.csv

Enable Debug Mode:

get-papers-list "COVID-19 vaccines" -d

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🏗 Project Structure

medquerypy/
│── medquerypy/        # Package directory
│   │── __init__.py    # Makes the folder a Python package
│   │── fetcher.py     # Module for fetching PubMed papers & AI processing
│── cli.py             # Command-line interface script
│── README.md          # Documentation
│── pyproject.toml     # Poetry configuration
│── poetry.lock        # Poetry lock file
│── .gitignore         # Git ignore file

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🤖 Technology Stack

• Python 🐍
• Requests (for API calls) 🌐
• OpenAI GPT-4 (for AI-based filtering & summarization) 🧠
• CSV (for saving results) 📊
• Poetry (for package management) 📦

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⚡ How It Works

1. The CLI takes a search query as input.
2. Fetches PubMed papers matching the query.
3. Uses AI to identify non-academic authors.
4. Uses AI to summarize research papers.
5. Outputs results to console or CSV.

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🌟 Contributing

🎯 Contributions are welcome! Feel free to fork the repo and submit a PR.

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📄 License

📝 MIT License. See LICENSE for details.