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BioContainers: an open-source and community-driven framework for software standardization.

Felipe da Veiga Leprevost1, Björn A Grüning2,3, Saulo Alves Aflitos4

  • 1Department of Pathology, University of Michigan, Ann Arbor, MI 48109, USA.

Bioinformatics (Oxford, England)
|April 6, 2017
PubMed

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Summary
This summary is machine-generated.

BioContainers offers a community-driven framework for creating and managing bioinformatics software containers. This open-source solution simplifies software installation, version control, and pipeline development for omics research across diverse computing environments.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Software Engineering

Background:

  • BioContainers is an open-source, community-driven framework for bioinformatics.
  • It provides platform-independent executable environments for bioinformatics software.
  • Leverages Docker and rkt for isolated and controlled software execution.

Purpose of the Study:

  • To provide a framework for easy installation and management of bioinformatics software.
  • To enable the creation, management, and distribution of bioinformatics containers, especially for omics technologies.
  • To facilitate the integration of bioinformatics tools into analysis pipelines across various architectures.

Main Methods:

  • Utilizes open-source containerization technologies like Docker and rkt.

Related Experiment Videos

  • Provides infrastructure and guidelines for container creation and management.
  • Focuses on omics technologies for container development.

    • Main Results:

    • Enables labs to easily install and maintain multiple software versions.
    • Facilitates the combination of tools into powerful analysis pipelines.
    • Supports deployment on local desktops, cloud environments, and HPC clusters.

    Conclusions:

    • BioContainers simplifies bioinformatics software management and pipeline development.
    • It enhances reproducibility and accessibility of omics research tools.
    • The framework supports diverse computational infrastructures for bioinformatics workflows.