BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods.
|Title||BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods.|
|Publication Type||Journal Article|
|Year of Publication||2017|
|Authors||Gorgolewski 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|
|Journal||PLoS Comput Biol|
|Date Published||2017 Mar|
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.
|Alternate Journal||PLoS Comput. Biol.|
|PubMed Central ID||PMC5363996|
|Grant List||R01 EB020740 / EB / NIBIB NIH HHS / United States |
R01 MH096906 / MH / NIMH NIH HHS / United States