UCL logo

UCL Discovery

UCL home » Library Services » Electronic resources » UCL Discovery

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

Gorgolewski, KJ; Alfaro-Almagro, F; Auer, T; Bellec, P; Capotă, M; Chakravarty, MM; Churchill, NW; ... Poldrack, RA; + view all (2017) BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods. PLoS Computational Biology , 13 (3) , Article e1005209. 10.1371/journal.pcbi.1005209. Green open access

[img]
Preview
Text
journal.pcbi.1005209.pdf - ["content_typename_Published version" not defined]

Download (1MB) | Preview

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.

Type: Article
Title: BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods
Location: United States
Open access status: An open access version is available from UCL Discovery
DOI: 10.1371/journal.pcbi.1005209
Publisher version: http://dx.doi.org/10.1371/journal.pcbi.1005209
Language: English
Additional information: © 2017 Gorgolewski et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology > Imaging Neuroscience
URI: http://discovery.ucl.ac.uk/id/eprint/1545036
Downloads since deposit
80Downloads
Download activity - last month
Download activity - last 12 months
Downloads by country - last 12 months

Archive Staff Only

View Item View Item