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WebMGA: a customizable web server for fast metagenomic sequence analysis.

Sitao Wu1, Zhengwei Zhu, Liming Fu

  • 1Center for Research in Biological Systems, University of California San Diego, La Jolla, California 92093, USA.

BMC Genomics
|September 9, 2011
PubMed
Summary
This summary is machine-generated.

WebMGA is a new web server for fast metagenomic analysis, simplifying complex data challenges. It offers over 20 tools for researchers, improving microorganism community studies.

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Area of Science:

  • Microbiology
  • Bioinformatics
  • Computational Biology

Background:

  • Metagenomics, the study of microorganism communities via culture-independent sequencing, faces challenges due to large, complex next-generation sequencing data.
  • Analyzing vast metagenomic datasets is time-consuming, and computational tools are difficult for users to install and maintain.
  • Existing web servers for metagenomic analysis have limitations, including login requirements, long wait times, and restricted pipeline customization.

Purpose of the Study:

  • To develop a customizable web server for rapid and efficient metagenomic data analysis.
  • To provide researchers with easy access to a comprehensive suite of commonly used metagenomic tools.
  • To overcome the limitations of existing web servers and facilitate complex metagenomic analyses.

Main Methods:

  • Development of WebMGA, a web server integrating over 20 essential metagenomic analysis tools.
  • Implementation of parallel processing on a local computer cluster for accelerated data analysis.
  • Provision of user-friendly web browser access and programming script options for customized analysis pipelines.

Main Results:

  • WebMGA offers fast and effective metagenomic data analysis through optimized tools.
  • The server includes functionalities for ORF calling, sequence clustering, quality control, artifact removal, taxonomic analysis, and functional annotation.
  • Users can perform individual analyses or configure custom pipelines via web or scripts.

Conclusions:

  • WebMGA provides researchers with fast, flexible, and unique tools for complex metagenomic data analysis.
  • The customizable web server addresses the challenges of large-scale metagenomic data processing.
  • WebMGA is freely available, enhancing accessibility for the scientific community.