Bioboxes: standardised containers for interchangeable bioinformatics software

Belmann P, Dröge J, Bremges A, McHardy AC, Sczyrba A, Barton MD (2015)
GigaScience 4: 47.

Journal Article | Published | English

No fulltext has been uploaded

Author
; ; ; ; ;
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.
Publishing Year
eISSN
PUB-ID

Cite this

Belmann P, Dröge J, Bremges A, McHardy AC, Sczyrba A, Barton MD. Bioboxes: standardised containers for interchangeable bioinformatics software. GigaScience. 2015;4: 47.
Belmann, P., Dröge, J., Bremges, A., McHardy, A. C., Sczyrba, A., & Barton, M. D. (2015). Bioboxes: standardised containers for interchangeable bioinformatics software. GigaScience, 4: 47.
Belmann, P., Dröge, J., Bremges, A., McHardy, A. C., Sczyrba, A., and Barton, M. D. (2015). Bioboxes: standardised containers for interchangeable bioinformatics software. GigaScience 4:47.
Belmann, P., et al., 2015. Bioboxes: standardised containers for interchangeable bioinformatics software. GigaScience, 4: 47.
P. Belmann, et al., “Bioboxes: standardised containers for interchangeable bioinformatics software”, GigaScience, vol. 4, 2015, : 47.
Belmann, P., Dröge, J., Bremges, A., McHardy, A.C., Sczyrba, A., Barton, M.D.: Bioboxes: standardised containers for interchangeable bioinformatics software. GigaScience. 4, : 47 (2015).
Belmann, Peter, Dröge, Johannes, Bremges, Andreas, McHardy, Alice C, Sczyrba, Alexander, and Barton, Michael D. “Bioboxes: standardised containers for interchangeable bioinformatics software”. GigaScience 4 (2015): 47.
This data publication is cited in the following publications:
This publication cites the following data publications:

2 Citations in Europe PMC

Data provided by Europe PubMed Central.

Tools and techniques for computational reproducibility.
Piccolo SR, Frampton MB., Gigascience 5(1), 2016
PMID: 27401684
BioShaDock: a community driven bioinformatics shared Docker-based tools registry.
Moreews F, Sallou O, Menager H, Le Bras Y, Monjeaud C, Blanchet C, Collin O., F1000Res 4(), 2015
PMID: 26913191

10 References

Data provided by Europe PubMed Central.

Rise and demise of bioinformatics? Promise and progress.
Ouzounis CA., PLoS Comput. Biol. 8(4), 2012
PMID: 22570600
Core services: Reward bioinformaticians.
Chang J., Nature 520(7546), 2015
PMID: 25855439
Creating a bioinformatics nation.
Stein L., Nature 417(6885), 2002
PMID: 12000935
Scholarly context not found: one in five articles suffers from reference rot.
Klein M, Van de Sompel H, Sanderson R, Shankar H, Balakireva L, Zhou K, Tobin R., PLoS ONE 9(12), 2014
PMID: 25541969

AUTHOR UNKNOWN, 0
An introduction to Docker for reproducible research, with examples from the R environment
Boettiger C., 2014
The impact of Docker containers on the performance of genomic pipelines
Di P, Palumbo E, Chatzou M, Prieto P, Heuer ML, Notredame C., 2015

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 26473029
PubMed | Europe PMC

Search this title in

Google Scholar