tRigon: an R package and Shiny App for integrative (path-)omics data analysis

Area of Science:

• Computational pathology
• Bioinformatics
• Data science

Background:

• Pathomics offers automated histopathology analysis but faces challenges with high-dimensional data, variability, and missingness.
• Quick and comprehensible analysis of pathomics data is crucial for broad implementation.
• Existing tools may not adequately address the complexities of pathomics data analysis.

Purpose of the Study:

• To develop a user-friendly application for fast, comprehensive, and reproducible pathomics data analysis.
• To facilitate exploratory feature analysis for researchers without coding expertise.
• To support the integration and interpretation of pathomics and other omics datasets.

Main Methods:

• Development of tRigon (Toolbox foR InteGrative (path-)Omics data aNalysis), a Shiny application.
• tRigon is available as an R package from CRAN and its source code is on GitLab.
• The application can be installed locally or accessed online via a web interface.

Main Results:

• tRigon demonstrates fast computation for datasets of various sizes across different hardware.
• The application provides a user-friendly interface for exploratory data analysis.
• Successful execution on low- and high-performance hardware indicates broad applicability.

Conclusions:

• tRigon empowers researchers without coding skills to conduct their own exploratory analyses.
• The toolbox supports pathomics and non-pathomics datasets on diverse hardware.
• tRigon facilitates broader implementation and accessibility of advanced pathomics analysis.