Dataset Information

Ggkegg: analysis and visualization of KEGG data utilizing the grammar of graphics.

ABSTRACT:

Summary

The Kyoto Encyclopedia of Genes and Genomes (KEGG) database serves as a valuable systems biology resource and is widely utilized in diverse research fields. However, existing software does not allow flexible visualization and network analyses of the vast and complex KEGG data. We developed ggkegg, an R package that integrates KEGG information with ggplot2 and ggraph. ggkegg enables enhanced visualization and network analyses of KEGG data. We demonstrate the utility of the package by providing examples of its application in single-cell, bulk transcriptome, and microbiome analyses. ggkegg may empower researchers to analyze complex biological networks and present their results effectively.

Availability and implementation

The package and user documentation are available at: https://github.com/noriakis/ggkegg.

SUBMITTER: Sato N

PROVIDER: S-EPMC10612400 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature

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Publications

ggkegg: analysis and visualization of KEGG data utilizing the grammar of graphics.

Sato Noriaki N Uematsu Miho M Fujimoto Kosuke K Uematsu Satoshi S Imoto Seiya S

Bioinformatics (Oxford, England) 20231001 10

<h4>Summary</h4>The Kyoto Encyclopedia of Genes and Genomes (KEGG) database serves as a valuable systems biology resource and is widely utilized in diverse research fields. However, existing software does not allow flexible visualization and network analyses of the vast and complex KEGG data. We developed ggkegg, an R package that integrates KEGG information with ggplot2 and ggraph. ggkegg enables enhanced visualization and network analyses of KEGG data. We demonstrate the utility of the package ...[more]

PMID: 37846038

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