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G4HunterApps.

Laurent Lacroix1

  • 1IBENS, ENS-CNRS UMR8197, Inserm U1024, Ecole Normale Supérieure, Paris Cedex 05, France.

Bioinformatics (Oxford, England)
|November 17, 2018
PubMed
Summary

New R applications enhance G4Hunter accessibility for users. These tools simplify G4Hunter score computation and sequence extraction, improving genomic analysis workflows.

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Area of Science:

  • Bioinformatics
  • Computational Biology

Background:

  • G4Hunter is a tool for identifying G-quadruplex DNA structures.
  • Accessibility and ease of use can be barriers for researchers utilizing bioinformatics tools.

Purpose of the Study:

  • To develop user-friendly applications for the G4Hunter tool.
  • To enhance the accessibility of G4Hunter for a wider user base.

Main Methods:

  • Development of standalone applications using the Shiny/R framework.
  • Implementation of functionalities for G4Hunter score calculation and sequence extraction.

Main Results:

  • Created multiple small applications to perform specific G4Hunter-related tasks.
  • Applications can compute G4Hunter scores for single or multiple sequences.
  • Applications can extract sequences based on G4Hunter score thresholds for sequences up to 5 Mb or lists of short sequences.

Conclusions:

  • The developed Shiny applications improve the usability and accessibility of G4Hunter.
  • These tools facilitate G-quadruplex analysis in bioinformatics research.
  • The source code is publicly available on GitHub for further development and use.

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