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iSEE: Interactive SummarizedExperiment Explorer.

Kevin Rue-Albrecht1, Federico Marini2,3, Charlotte Soneson4,5

  • 1Kennedy Institute of Rheumatology, University of Oxford, Oxford , OX3 7FY, UK.

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|July 14, 2018
PubMed
Summary
This summary is machine-generated.

The Interactive SummarizedExperiment Explorer (iSEE) is a new software package for visualizing large biological datasets. It offers a general interface compatible with various analysis tools, enhancing data exploration and reproducibility.

Keywords:
BioconductorRgenomicsinteractiveproteomicsshinytranscriptomicsvisualization

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Data Visualization

Background:

  • Comprehending large biological datasets from high-throughput assays requires effective data exploration tools.
  • Existing interactive visualization tools often lack generality, being limited to specific assays or analyses.

Purpose of the Study:

  • To present the iSEE (Interactive SummarizedExperiment Explorer) software package, a general visual interface for exploring SummarizedExperiment objects.
  • To provide a tool compatible with existing R/Bioconductor packages for high-throughput biological data analysis.

Main Methods:

  • Developed the iSEE software package as a general visual interface for SummarizedExperiment objects.
  • Ensured compatibility with a wide range of R/Bioconductor packages for biological data analysis.
  • Integrated features for simultaneous examination of metadata, analysis results, and dynamic plot linking.

Main Results:

  • iSEE provides a unified visual interface for diverse biological datasets.
  • The software facilitates simultaneous exploration of data, metadata, and analysis outcomes.
  • Features like dynamic linking and code tracking enhance usability and reproducibility.

Conclusions:

  • iSEE offers a flexible and powerful solution for interactive exploration of high-throughput biological data.
  • The package's general applicability and integration capabilities streamline data analysis workflows.
  • iSEE improves the comprehension and reproducibility of biological data exploration.