Toward standard practices for sharing computer code and programs in neuroscience

Affiliations

¹ Cambridge Computational Biology Institute, Department of Applied Mathematics and Theoretical Physics, University of Cambridge, Cambridge, UK.
² Department of Anthropology, University of Washington, Seattle, Washington, USA.
³ Department of Psychological and Brain Sciences, Dartmouth College, Hanover, New Hampshire, USA.
⁴ Institute of Psychology II, Otto-von-Guericke-University Magdeburg, Magdeburg, Germany.
⁵ Center for Behavioral Brain Sciences, Magdeburg, Germany.
⁶ Software Sustainability Institute, University of Manchester, Manchester, UK.
⁷ Department of Neuroscience, Physiology and Pharmacology, University College London, London, UK.
⁸ Unité de Neurosciences, Information et Complexité, CNRS, Gif sur Yvette, France.
⁹ International Neuroinformatics Coordinating Facility, Karolinska Institutet, Stockholm, Sweden.
¹⁰ Department of Biology II, Ludwig-Maximilians-Universität München, Munich, Germany.
¹¹ Institute for Adaptive and Neural Computation, School of Informatics, University of Edinburgh, Edinburgh, UK.
¹² MAP5 Paris-Descartes University and CNRS UMR 8145, Paris, France.
¹³ Henry H. Wheeler, Jr. Brain Imaging Center, Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, California, USA.

PMID: 28542156
PMCID: PMC6386137
DOI: 10.1038/nn.4550

Toward standard practices for sharing computer code and programs in neuroscience

Stephen J Eglen et al. Nat Neurosci. 2017.

. 2017 May 25;20(6):770-773.

doi: 10.1038/nn.4550.

Authors

Affiliations

¹ Cambridge Computational Biology Institute, Department of Applied Mathematics and Theoretical Physics, University of Cambridge, Cambridge, UK.
² Department of Anthropology, University of Washington, Seattle, Washington, USA.
³ Department of Psychological and Brain Sciences, Dartmouth College, Hanover, New Hampshire, USA.
⁴ Institute of Psychology II, Otto-von-Guericke-University Magdeburg, Magdeburg, Germany.
⁵ Center for Behavioral Brain Sciences, Magdeburg, Germany.
⁶ Software Sustainability Institute, University of Manchester, Manchester, UK.
⁷ Department of Neuroscience, Physiology and Pharmacology, University College London, London, UK.
⁸ Unité de Neurosciences, Information et Complexité, CNRS, Gif sur Yvette, France.
⁹ International Neuroinformatics Coordinating Facility, Karolinska Institutet, Stockholm, Sweden.
¹⁰ Department of Biology II, Ludwig-Maximilians-Universität München, Munich, Germany.
¹¹ Institute for Adaptive and Neural Computation, School of Informatics, University of Edinburgh, Edinburgh, UK.
¹² MAP5 Paris-Descartes University and CNRS UMR 8145, Paris, France.
¹³ Henry H. Wheeler, Jr. Brain Imaging Center, Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, California, USA.

PMID: 28542156
PMCID: PMC6386137
DOI: 10.1038/nn.4550

Abstract

Computational techniques are central in many areas of neuroscience, and are relatively easy to share. This paper describes why computer programs underlying scientific publications should be shared, and lists simple steps for sharing. Together with ongoing efforts in data sharing, this should aid reproducibility of research.

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Conflict of interest statement

Competing Financial Interests Statement

None.

References

1. Nature. Challenges in irreproducible research. 2017 http://www.nature.com/nature/focus/reproducibility.
1. Vihinen M. No more hidden solutions in bioinformatics. Nature. 2015;521:261. - PubMed
1. Morin A, et al. Research priorities. Shining light into black boxes. Science. 2012;336:159–160. - PMC - PubMed
1. Barnes N. Publish your computer code: it is good enough. Nature. 2010;467:753. - PubMed
1. Ince DC, Hatton L, Graham-Cumming J. The case for open computer programs. Nature. 2012;482:485–488. - PubMed

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Toward standard practices for sharing computer code and programs in neuroscience

Affiliations

Toward standard practices for sharing computer code and programs in neuroscience

Authors

Affiliations

Abstract

Conflict of interest statement

References

Publication types

MeSH terms

Grants and funding

LinkOut - more resources

Full Text Sources

Other Literature Sources