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MetaDAVis: An R shiny application for metagenomic data analysis and visualization.
Sankarasubramanian Jagadesan1, Chittibabu Guda1,2
1Department of Genetics, Cell Biology and Anatomy, University of Nebraska Medical Center, Omaha, Nebraska, United States of America.
Plos One
|April 7, 2025
Summary
We developed MetaDAVis, an R Shiny tool for analyzing and visualizing human microbiome sequencing data. This user-friendly application simplifies complex metagenomic data interpretation for researchers without programming experience.
Area of Science:
- Microbiology
- Bioinformatics
- Computational Biology
Background:
- The human microbiome is crucial for health and disease.
- High-throughput sequencing generates vast amounts of microbiome data.
- Analyzing and visualizing this data presents significant challenges for biological interpretation.
Purpose of the Study:
- To develop an interactive tool for metagenome data analysis and visualization.
- To address the challenges of interpreting large-scale microbiome sequencing data.
- To provide a user-friendly platform for both 16S rRNA and whole genome sequencing data.
Main Methods:
- Developed an R Shiny application named MetaDAVis.
- Integrated six core analysis modules: taxonomic abundance, diversity, dimension reduction (PCA, t-SNE, UMAP), correlation, heatmap generation, and differential abundance.
- Ensured the tool is interactive, dynamic, and customizable.
Main Results:
- MetaDAVis enables comprehensive analysis and visualization of microbiome data.
- The tool generates interactive figures and tables for easier data understanding.
- It supports both standalone and web-based interfaces, catering to users with and without programming backgrounds.
Conclusions:
- MetaDAVis offers a powerful, accessible solution for metagenomic data analysis and visualization.
- The tool empowers researchers to derive meaningful biological insights from complex microbiome datasets.
- Its user-friendly design democratizes advanced bioinformatics analysis for a wider scientific audience.
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