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Developing Interactive Plug-ins for tranSMART Using the SmartR Framework: The Case of Survival Analysis.

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This study demonstrates that custom SmartR workflows can extend the tranSMART platform for enhanced translational research. While a prototype for survival analysis was successful, further development is needed for full functionality.

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Area of Science:

  • Bioinformatics
  • Translational Research
  • Data Analysis

Background:

  • TranSMART is a widely adopted platform for translational research.
  • Current data analysis features in TranSMART lack user interactivity and export options.
  • SmartR, a plugin, aims to address these limitations with interactive workflows.

Purpose of the Study:

  • To validate the feasibility of creating custom SmartR workflows.
  • To enhance TranSMART's survival analysis capabilities through a bespoke workflow.
  • To incorporate specific user requirements into the analysis.

Main Methods:

  • Analysis of existing SmartR workflows to understand its architecture.
  • Development of a new SmartR workflow focused on survival analysis.

Main Results:

  • Successful extension of TranSMART with a functional survival analysis prototype.
  • Demonstrated possibility of creating custom SmartR workflows.
  • Identified limitations including lack of binning for continuous variables and insufficient documentation.

Conclusions:

  • SmartR workflows offer a viable approach for interactive analysis within TranSMART.
  • The SmartR framework requires further enhancements to rival existing R modules.
  • Custom workflows can significantly improve specific analytical functions.