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Gigascience. 2015 Oct 15;4:47. doi: 10.1186/s13742-015-0087-0. eCollection 2015.

Bioboxes: standardised containers for interchangeable bioinformatics software.

Author information

1
Faculty of Technology and Center for Biotechnology, Bielefeld University, 33615 Bielefeld, Germany.
2
Computational Biology of Infection Research, Helmholtz Centre for Infection Research, 38124 Braunschweig, Germany.
3
Faculty of Technology and Center for Biotechnology, Bielefeld University, 33615 Bielefeld, Germany ; Computational Biology of Infection Research, Helmholtz Centre for Infection Research, 38124 Braunschweig, Germany.
4
DOE Joint Genome Institute, Walnut Creek, CA 94598 USA.

Abstract

Software is now both central and essential to modern biology, yet lack of availability, difficult installations, and complex user interfaces make software hard to obtain and use. Containerisation, as exemplified by the Docker platform, has the potential to solve the problems associated with sharing software. We propose bioboxes: containers with standardised interfaces to make bioinformatics software interchangeable.

KEYWORDS:

Bioinformatics; Docker; Reproducibility; Software; Standards; Usability

PMID:
26473029
PMCID:
PMC4607242
DOI:
10.1186/s13742-015-0087-0
[Indexed for MEDLINE]
Free PMC Article

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