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Sökning: id:"swepub:oai:DiVA.org:liu-135445" > BIDS apps: Improvin...

BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods

Gorgolewski, Krzysztof J. (författare)
Department of Psychology, Stanford University, Stanford, California, United States of America
Alfaro-Almagro, Fidel (författare)
Oxford Centre for Functional Magnetic Resonance Imaging of the Brain (FMRIB), Oxford University, Oxford, United Kingdom
Auer, Tibor (författare)
Department of Psychology, Royal Holloway University of London, Egham, United Kingdom
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Bellec, Pierre (författare)
Centre de Recherche de l’Institut Universitaire Gériatrique de Montréal, Montreal, Canada; Department of computer science and operations research, Université de Montréal, Montreal, Canada
Capotă, Michel (författare)
Parallel Computing Lab, Intel Corporation, Santa Clara, CA & Hillsboro, Oregon, United States of America
Chakravarty, M. Mallar (författare)
Douglas Mental Health University Institute, McGill University, Montreal, Canada; Department of Psychiatry McGill University, Montreal, Canada
Churchill, Nathan W. (författare)
Keenan Research Centre of the Li Ka Shing Knowledge Institute, St. Michael’s Hospital, Ontario, Canada
Li Cohen, Alexander (författare)
Department of Neurology, Boston Children’s Hospital, Boston, Massachusetts, United States of America
Craddock, R. Cameron (författare)
Computational Neuroimaging Lab, Center for Biomedical Imaging and Neuromodulation, Nathan S. Kline Institute for Psychiatric Research, Orangeburg, New York, United States of America; Center for the Developing Brain, Child Mind Institute, New York, New York, United States of America
Devenyi, Gabriel A. (författare)
Douglas Mental Health University Institute, McGill University, Montreal, Canada; Department of Psychiatry McGill University, Montreal, Canada
Eklund, Anders (författare)
Linköpings universitet,Centrum för medicinsk bildvetenskap och visualisering, CMIV,Avdelningen för medicinsk teknik,Statistik,Tekniska fakulteten
Esteban, Oscar (författare)
Department of Psychology, Stanford University, Stanford, California, United States of America
Flandin, Guillaume (författare)
Wellcome Trust Centre for Neuroimaging, London, United Kingdom
Ghosh, Satrajit S. (författare)
McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America; Department of Otolaryngology, Harvard Medical School, Boston, Massachusetts, United States of America
Guntupalli, J. Swaroop (författare)
Department of Psychological and Brain Sciences, Dartmouth College, Hanover, New Hampshire, United States of America
Jenkinson, Mark (författare)
Oxford Centre for Functional Magnetic Resonance Imaging of the Brain (FMRIB), Oxford University, Oxford, United Kingdom
Keshavan, Anisha (författare)
UC Berkeley-UCSF Graduate Program in Bioengineering, San Francisco, California, United States of America
Kiar, Gregory (författare)
Center for Imaging Science, Johns Hopkins University, Baltimore, Maryland, United States of America; Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, United States of America
Liem, Franziskus (författare)
University Research Priority Program "Dynamics of Healthy Aging", University of Zurich, Zurich, Switzerland
Reddy Raamana, Pradeep (författare)
Rotman Research Institute, Baycrest Health Sciences, Toronto, Ontario, Canada; Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada
Raffelt, David (författare)
Florey Institute of Neuroscience and Mental Health, Melbourne, Victoria, Australia
Steele, Cristopher J. (författare)
Douglas Mental Health University Institute, McGill University, Montreal, Canada; Department of Psychiatry McGill University, Montreal, Canada
Quirion, Pierre-Olivier (författare)
Linköpings universitet,Centrum för medicinsk bildvetenskap och visualisering, CMIV
Smith, Robert E. (författare)
Florey Institute of Neuroscience and Mental Health, Melbourne, Victoria, Australia
Strother, Stephen C. (författare)
Rotman Research Institute, Baycrest Health Sciences, Toronto, Ontario, Canada; Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada
Varoquaux, Gaël (författare)
Parietal team, INRIA Saclay Ile-de-France, Palaiseau, France
Wang, Yida (författare)
Parallel Computing Lab, Intel Corporation, Santa Clara, CA & Hillsboro, Oregon, United States of America
Yarkoni, Tal (författare)
Department of Psychology, University of Texas at Austin, Austin, Texas, United States of America
Poldrack, Russel A. (författare)
Department of Psychology, Stanford University, Stanford, California, United States of America
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 (creator_code:org_t)
2017-03-09
2017
Engelska.
Ingår i: PloS Computational Biology. - : Public Library of Science (PLoS). - 1553-734X .- 1553-7358. ; 13:3
Relaterad länk:
https://doi.org/10.1...
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https://liu.diva-por... (primary) (Raw object)
https://journals.plo...
https://urn.kb.se/re...
https://doi.org/10.1...
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  • Tidskriftsartikel (refereegranskat)
Abstract Ämnesord
Stäng  
  • The rate of progress in human neurosciences is limited by the inability to easily apply a wide range of analysis methods to the plethora of different datasets acquired in labs around the world. In this work, we introduce a framework for creating, testing, versioning and archiving portable applications for analyzing neuroimaging data organized and described in compliance with the Brain Imaging Data Structure (BIDS). The portability of these applications (BIDS Apps) is achieved by using container technologies that encapsulate all binary and other dependencies in one convenient package. BIDS Apps run on all three major operating systems with no need for complex setup and configuration and thanks to the comprehensiveness of the BIDS standard they require little manual user input. Previous containerized data processing solutions were limited to single user environments and not compatible with most multi-tenant High Performance Computing systems. BIDS Apps overcome this limitation by taking advantage of the Singularity container technology. As a proof of concept, this work is accompanied by 22 ready to use BIDS Apps, packaging a diverse set of commonly used neuroimaging algorithms.

Ämnesord

TEKNIK OCH TEKNOLOGIER  -- Medicinteknik (hsv//swe)
ENGINEERING AND TECHNOLOGY  -- Medical Engineering (hsv//eng)

Nyckelord

Neuroimaging
Functional magnetic resonance imaging
Operating systems
Software development
Data processing
Magnetic resonance imaging
Software tools
Diffusion weighted imaging

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