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Updated: Jun 20, 2025

A Web Tool for Generating High Quality Machine-readable Biological Pathways
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BioPipeline Creator-a user-friendly Java-based GUI for managing and customizing biological data pipelines.

Cléo Maia Cordeiro1, Gislenne da Silva Moia2, Mônica Silva de Oliveira3

  • 1Faculty of Computing, Federal University of Pará campus Castanhal, Pará, Brazil.

Scientific Reports
|July 17, 2024
PubMed
Summary

BioPipeline Creator simplifies omics data analysis by integrating diverse bioinformatics tools. This user-friendly GUI empowers researchers without advanced computational skills to build custom analysis pipelines, enhancing research accessibility.

Keywords:
BioinformaticsCustomized pipelineResearch reproducibility

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Area of Science:

  • Bioinformatics and Computational Biology
  • Genomics and Molecular Biology

Background:

  • Bioinformatics tools are crucial for omics sciences, but specialized tools pose integration challenges for non-bioinformaticians.
  • High-throughput sequencing and omics advancements necessitate accessible analytical solutions.

Purpose of the Study:

  • To develop a user-friendly graphical user interface (GUI) for integrating diverse bioinformatics software.
  • To enable non-bioinformaticians to create customized omics analysis pipelines.

Main Methods:

  • Developed BioPipeline Creator, a Java-based GUI with client and server components.
  • Designed for intuitive interaction, simplifying the use of various bioinformatics tools.
  • Ensures compatibility with major operating systems and local/remote network processing.

Main Results:

  • BioPipeline Creator facilitates the integration of multiple bioinformatics tools.
  • The GUI simplifies pipeline creation for users with limited computational expertise.
  • The software is compatible with most operating systems and can run on standard workstations.

Conclusions:

  • BioPipeline Creator enhances accessibility to omics data analysis for a broader research community.
  • The tool addresses the challenge of integrating specialized bioinformatics software into custom workflows.
  • Facilitates efficient and user-friendly omics data processing across different computing environments.