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

TitleBIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods.
Publication TypeJournal Article
Year of Publication2017
AuthorsGorgolewski KJ, Alfaro-Almagro F, Auer T, Bellec P, Capotă M, M Chakravarty M, Churchill NW, Cohen ALi, R Craddock C, Devenyi GA, Eklund A, Esteban O, Flandin G, Ghosh SS, J Guntupalli S, Jenkinson M, Keshavan A, Kiar G, Liem F, Raamana PReddy, Raffelt D, Steele CJ, Quirion P-O, Smith RE, Strother SC, Varoquaux G, Wang Y, Yarkoni T, Poldrack RA
JournalPLoS Comput Biol
Volume13
Issue3
Paginatione1005209
Date Published2017 Mar
ISSN1553-7358
Abstract

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.

DOI10.1371/journal.pcbi.1005209
Alternate JournalPLoS Comput. Biol.
PubMed ID28278228
PubMed Central IDPMC5363996
Grant ListR01 EB020740 / EB / NIBIB NIH HHS / United States
R01 MH096906 / MH / NIMH NIH HHS / United States

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