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oppHeatmap: Rendering Various Types of Heatmaps for Omics Data.

Ze-Ning Wang1, Jun Yao1, Hang Liu1

  • 1Department of Chemistry, Shanghai Stomatological Hospital & Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433, China.

Applied Biochemistry and Biotechnology
|August 11, 2023
PubMed
Summary
This summary is machine-generated.

oppHeatmap is a new MATLAB tool for creating diverse heatmaps from high-throughput omics data. It offers customizable plots, including hierarchical clustering and correlations, with flexible data input and SVG export.

Keywords:
Graphical user interfaceHeatmapMATLAB AppDesignerOmics dataOmics pilot platformVisualization

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Area of Science:

  • Bioinformatics
  • Data Visualization

Background:

  • High-throughput omics data requires effective visualization.
  • Heatmaps are a common and preferred method for displaying complex biological data.

Purpose of the Study:

  • To introduce oppHeatmap, a novel MATLAB-based tool for generating various customized heatmaps.
  • To provide biologists with a versatile platform for visualizing omics data.

Main Methods:

  • Developed using MATLAB AppDesigner with a graphical user interface (GUI).
  • Supports multiple heatmap types: ordinary, hierarchical clustering, TreeMaps, microplates, sample/gene correlation, and polar heatmaps.
  • Enables customization of plot elements like borders, fonts, and colors.

Main Results:

  • oppHeatmap can read data from Microsoft Excel and generate heatmaps directly within Excel.
  • Generated heatmaps can be exported in Scalable Vector Graphics (SVG) format for further modification.
  • The tool facilitates the visualization of high-dimensional omics data through diverse heatmap representations.

Conclusions:

  • oppHeatmap offers a user-friendly and flexible solution for creating customized heatmaps.
  • The tool enhances the analysis and interpretation of high-throughput omics data.
  • Availability on GitHub promotes accessibility and further development.