pubmed-package 0.1.2

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PubMed Research Papers CLI Tool

This repository contains a Python CLI tool to fetch research papers from PubMed, identify non-academic authors based on affiliations, and save the results in a CSV file.

Features

• Fetch Papers: Retrieve papers using the PubMed API.
• Filter Non-Academic Authors: Identify authors affiliated with non-academic institutions.
• Command-Line Options: Flexibility to specify queries, debug mode, and output file.
• CSV Output: Save the results in a structured CSV format.

Requirements

• Python 3.8+

Install package with:

pip install pubmed_package

Usage

Run the tool from the command line:

pubmed_api "<query>" [-d] [-f <output_file>]

Arguments

• <query>: The search query to use with PubMed.
• -d, --debug: Enable debug mode for detailed logs.
• -f, --file <output_file>: Specify the filename to save results as CSV. If not provided, results will be printed to the console.

Example

Fetch papers related to "breast cancer" and save them to results.csv:

pubmed_api "breast cancer" -f results.csv

Enable debug mode to see detailed execution logs:

pubmed_api "breast cancer" -d

File Structure

• pubmed.py: Main script containing the CLI tool.
• PubMed_CLI_Tool.ipynb: Jupyter Notebook version of the script for interactive use.