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bioBakery: a meta'omic analysis environment.

Lauren J McIver1,2, Galeb Abu-Ali1,2, Eric A Franzosa1,2

  • 1Department of Biostatistics, Harvard T. H. Chan School of Public Health, Boston, MA 02115, USA.

Bioinformatics (Oxford, England)
|December 2, 2017
PubMed
Summary
This summary is machine-generated.

bioBakery offers a comprehensive meta

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Area of Science:

  • Microbial meta'omics
  • Computational biology
  • Bioinformatics

Background:

  • Shotgun sequencing generates vast amounts of microbial community data.
  • Analyzing this data requires specialized bioinformatics tools.
  • Reproducibility in meta'omic analysis is a significant challenge.

Purpose of the Study:

  • To introduce bioBakery, an integrated meta'omic analysis environment.
  • To provide a suite of modular software tools for processing shotgun sequencing data.
  • To enhance reproducibility in microbial community profiling.

Main Methods:

  • bioBakery comprises individual software modules for specific tasks.
  • Modules can be combined into workflows for streamlined analysis.
  • A virtual machine image offers pre-installed modules and dependencies.
  • Tools are open-source with provided tutorials and validation data.

Main Results:

  • bioBakery processes raw shotgun sequencing data into feature profiles.
  • It generates summary reports and publication-ready figures.
  • The environment supports quantitative taxonomic profiling and statistical analysis.

Conclusions:

  • bioBakery provides a robust and reproducible platform for meta'omic data analysis.
  • Its modular design and pre-configured workflows facilitate complex analyses.
  • The open-source availability and active maintenance ensure accessibility and support.