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AgrOmicSo: A client-server interface for accessible large-scale analysis of next-generation sequencing data.
Dong-Jun Lee1, Tae-Ho Lee1, Taesoo Kwon2
1Supercomputing Center, National Institute of Agricultural Science, Jeonju, Republic of Korea.
Plos One
|June 1, 2026
Summary
AgrOmicSo simplifies complex next-generation sequencing (NGS) data analysis by providing a user-friendly interface to high-performance computing (HPC) resources. This software makes large-scale genomic analysis more accessible and efficient for researchers.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Large-scale next-generation sequencing (NGS) data analysis demands significant computational power, often requiring high-performance computing (HPC) environments.
- Command-line interfaces for HPC present a substantial barrier for many researchers, limiting access to advanced analytical capabilities.
Purpose of the Study:
- To develop AgrOmicSo (Agri-bio Omics Solution), a software providing a user-friendly graphical interface to a server-side analysis engine for NGS data.
- To bridge the gap between researchers and powerful HPC resources for large-scale genomic analysis.
Main Methods:
- Developed a client-server architecture for AgrOmicSo, enabling remote execution of NGS analysis pipelines via a graphical user interface.
- Integrated a suite of bioinformatics tools for quality control, read mapping, variant calling (GATK, DeepVariant, VarScan), and annotation.
- Implemented "One-Step" for automated batch processing and "Step-by-Step" modes for customized analyses.
Main Results:
- AgrOmicSo facilitates management and execution of complex, large-scale NGS data analysis pipelines on remote servers.
- The software offers flexibility with support for multiple variant calling algorithms and processing modes.
- Demonstrated the utility of AgrOmicSo in making powerful computational resources more accessible, efficient, and reproducible.
Conclusions:
- AgrOmicSo enhances accessibility to HPC for large-scale genomic analysis, empowering a broader scientific community.
- The software promotes efficient and reproducible research by simplifying complex NGS data processing.
- AgrOmicSo represents a significant advancement in making advanced bioinformatics tools readily available to researchers.
Related Concept Videos
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Although all next-generation methods use different technologies, they all share a set of standard features.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
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