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medspacyV: a graphical user interface for the open source medspaCy natural language processing package.

Bharath Velamala1,2,3, Elham Sagheb Hossein Pour1, Michael Lin2

  • 1Department of Artificial Intelligence and Informatics, Mayo Clinic, Rochester, MN, 55905, United States.

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Summary
This summary is machine-generated.

medspacyV is a new tool enabling users with limited technical skills to perform biomedical natural language processing (NLP). This user-friendly interface simplifies complex NLP tasks for researchers and healthcare professionals.

Keywords:
natural language processingsoftware designuser-computer interface

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Area of Science:

  • Biomedical Informatics
  • Computational Linguistics

Background:

  • Biomedical Natural Language Processing (NLP) often requires significant technical expertise.
  • There is a need for accessible tools to facilitate NLP in healthcare research.

Purpose of the Study:

  • To develop a user-friendly interface for biomedical NLP tasks.
  • To empower users with modest technical backgrounds to perform NLP.

Main Methods:

  • Developed medspacyV using Python's tkinter library and the MVC design pattern.
  • Integrated a rule-based pipeline for sentence splitting, section segmentation, concept identification, and negation detection.
  • Designed an interface for project configuration, rule execution, and output management.

Main Results:

  • The primary window allows users to configure projects, execute NLP rules, and save outputs.
  • A separate annotation viewer enables inspection of NLP results.
  • The rule-based approach proves sufficient for various NLP use cases.

Conclusions:

  • medspacyV offers controllability, explainability, and economy for NLP projects.
  • The program is publicly available to support healthcare professionals and researchers in their NLP endeavors.