Literature DB >> 35095452

BIDScoin: A User-Friendly Application to Convert Source Data to Brain Imaging Data Structure.

Marcel Peter Zwiers1, Stefano Moia2, Robert Oostenveld1,3.   

Abstract

Analyses of brain function and anatomy using shared neuroimaging data is an important development, and have acquired the potential to be scaled up with the specification of a new Brain Imaging Data Structure (BIDS) standard. To date, a variety of software tools help researchers in converting their source data to BIDS but often require programming skills or are tailored to specific institutes, data sets, or data formats. In this paper, we introduce BIDScoin, a cross-platform, flexible, and user-friendly converter that provides a graphical user interface (GUI) to help users finding their way in BIDS standard. BIDScoin does not require programming skills to be set up and used and supports plugins to extend their functionality. In this paper, we show its design and demonstrate how it can be applied to a downloadable tutorial data set. BIDScoin is distributed as free and open-source software to foster the community-driven effort to promote and facilitate the use of BIDS standard.
Copyright © 2022 Zwiers, Moia and Oostenveld.

Entities:  

Keywords:  BIDS; GUI; Python; conversion; data sharing; neuroimaging; open-source software; plugin

Year:  2022        PMID: 35095452      PMCID: PMC8792932          DOI: 10.3389/fninf.2021.770608

Source DB:  PubMed          Journal:  Front Neuroinform        ISSN: 1662-5196            Impact factor:   4.081


  14 in total

1.  The Extensible Neuroimaging Archive Toolkit: an informatics platform for managing, exploring, and sharing neuroimaging data.

Authors:  Daniel S Marcus; Timothy R Olsen; Mohana Ramaratnam; Randy L Buckner
Journal:  Neuroinformatics       Date:  2007

Review 2.  Picture archiving and communication systems: an overview.

Authors:  R H Choplin; J M Boehme; C D Maynard
Journal:  Radiographics       Date:  1992-01       Impact factor: 5.333

3.  The first step for neuroimaging data analysis: DICOM to NIfTI conversion.

Authors:  Xiangrui Li; Paul S Morgan; John Ashburner; Jolinda Smith; Christopher Rorden
Journal:  J Neurosci Methods       Date:  2016-03-02       Impact factor: 2.390

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

Authors:  Krzysztof J Gorgolewski; Fidel Alfaro-Almagro; Tibor Auer; Pierre Bellec; Mihai Capotă; M Mallar Chakravarty; Nathan W Churchill; Alexander Li Cohen; R Cameron Craddock; Gabriel A Devenyi; Anders Eklund; Oscar Esteban; Guillaume Flandin; Satrajit S Ghosh; J Swaroop Guntupalli; Mark Jenkinson; Anisha Keshavan; Gregory Kiar; Franziskus Liem; Pradeep Reddy Raamana; David Raffelt; Christopher J Steele; Pierre-Olivier Quirion; Robert E Smith; Stephen C Strother; Gaël Varoquaux; Yida Wang; Tal Yarkoni; Russell A Poldrack
Journal:  PLoS Comput Biol       Date:  2017-03-09       Impact factor: 4.475

5.  Sharing the wealth: Neuroimaging data repositories.

Authors:  Simon Eickhoff; Thomas E Nichols; John D Van Horn; Jessica A Turner
Journal:  Neuroimage       Date:  2016-01-01       Impact factor: 6.556

6.  Data sharing in neuroimaging research.

Authors:  Jean-Baptiste Poline; Janis L Breeze; Satrajit Ghosh; Krzysztof Gorgolewski; Yaroslav O Halchenko; Michael Hanke; Christian Haselgrove; Karl G Helmer; David B Keator; Daniel S Marcus; Russell A Poldrack; Yannick Schwartz; John Ashburner; David N Kennedy
Journal:  Front Neuroinform       Date:  2012-04-05       Impact factor: 4.081

7.  MEG-BIDS, the brain imaging data structure extended to magnetoencephalography.

Authors:  Guiomar Niso; Krzysztof J Gorgolewski; Elizabeth Bock; Teon L Brooks; Guillaume Flandin; Alexandre Gramfort; Richard N Henson; Mainak Jas; Vladimir Litvak; Jeremy T Moreau; Robert Oostenveld; Jan-Mathijs Schoffelen; Francois Tadel; Joseph Wexler; Sylvain Baillet
Journal:  Sci Data       Date:  2018-06-19       Impact factor: 6.444

8.  iEEG-BIDS, extending the Brain Imaging Data Structure specification to human intracranial electrophysiology.

Authors:  Christopher Holdgraf; Stefan Appelhoff; Stephan Bickel; Kristofer Bouchard; Sasha D'Ambrosio; Olivier David; Orrin Devinsky; Benjamin Dichter; Adeen Flinker; Brett L Foster; Krzysztof J Gorgolewski; Iris Groen; David Groppe; Aysegul Gunduz; Liberty Hamilton; Christopher J Honey; Mainak Jas; Robert Knight; Jean-Philippe Lachaux; Jonathan C Lau; Christopher Lee-Messer; Brian N Lundstrom; Kai J Miller; Jeffrey G Ojemann; Robert Oostenveld; Natalia Petridou; Gio Piantoni; Andrea Pigorini; Nader Pouratian; Nick F Ramsey; Arjen Stolk; Nicole C Swann; François Tadel; Bradley Voytek; Brian A Wandell; Jonathan Winawer; Kirstie Whitaker; Lyuba Zehl; Dora Hermes
Journal:  Sci Data       Date:  2019-06-25       Impact factor: 6.444

9.  EEG-BIDS, an extension to the brain imaging data structure for electroencephalography.

Authors:  Cyril R Pernet; Stefan Appelhoff; Krzysztof J Gorgolewski; Guillaume Flandin; Christophe Phillips; Arnaud Delorme; Robert Oostenveld
Journal:  Sci Data       Date:  2019-06-25       Impact factor: 6.444

Review 10.  Data sharing and privacy issues in neuroimaging research: Opportunities, obstacles, challenges, and monsters under the bed.

Authors:  Tonya White; Elisabet Blok; Vince D Calhoun
Journal:  Hum Brain Mapp       Date:  2020-07-04       Impact factor: 5.038

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.