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File-based localization of numerical perturbations in data analysis pipelines.

Author(s): Salari A, Kiar G, Lewis L, Evans AC, Glatard T

BACKGROUND: Data analysis pipelines are known to be affected by computational conditions, presumably owing to the creation and propagation of numerical errors. While this process could play a major role in the current reproducibility crisis, the precise cau...

Article GUID: 33269388
Nighres: processing tools for high-resolution neuroimaging

Author(s): Huntenburg JM; Steele CJ; Bazin PL;

With recent improvements in human magnetic resonance imaging (MRI) at ultra-high fields, the amount of data collected per subject in a given MRI experiment has increased considerably. Standard image processing packages are often challenged by the size of th...

Article GUID: 29982501
Boutiques: a flexible framework to integrate command-line applications in computing platforms.

Author(s): Glatard T, Kiar G, Aumentado-Armstrong T, Beck N, Bellec P, Bernard R, Bonnet A, Brown ST, Camarasu-Pop S, Cervenansky F, Das S, Ferreira da...

Gigascience. 2018 05 01;7(5): Authors: Glatard T, Kiar G, Aumentado-Armstrong T, Beck N, Bellec P, Bernard R, Bonnet A, Brown ST, Camarasu-Pop S, Cervenansky F, Das S, Ferreira da Silva R, Flandin...

Article GUID: 29718199
Title:Nighres: processing tools for high-resolution neuroimaging
Authors:Huntenburg JM,  Steele CJ,  Bazin PL, 
Link:https://pubmed.ncbi.nlm.nih.gov/29982501/
DOI:10.1093/gigascience/giy082
Category:Gigascience
PMID:29982501
Dept Affiliation: PSYCHOLOGY
1 Max Planck Research Group for Neuroanatomy & Connectivity, Max Planck Institute for Human Cognitive and Brain Sciences, Stephanstrasse 1a, Leipzig, 04103, Germany.
2 Neurocomputation and Neuroimaging Unit, Department of Education and Psychology, Free University of Berlin, Habelschwerdter Allee 45, Berlin, 14195, Germany.
3 Department of Neurology, Max Planck Institute for Human Cognitive and Brain Sciences, Stephanstrasse 1a, Leipzig, 04103, Germany.
4 Cerebral Imaging Center, Douglas Mental Health University Institute, 6875 LaSalle Boulevard, Montreal, Quebec, H4H 1R3, Canada.
5 Department of Psychology, Concordia University, 7141 Sherbrooke West, Montreal, Quebec, H4B IR6, Canada.
6 Department of Neurophysics, Max Planck Institute for Human Cognitive and Brain Sciences, Stephanstrasse 1a, Leipzig, 04103, Germany.
7 Psychology Department, University of Amsterdam, Nieuwe Achtergracht 129B, Amsterdam, 1018 WT, Netherlands.

Description:

With recent improvements in human magnetic resonance imaging (MRI) at ultra-high fields, the amount of data collected per subject in a given MRI experiment has increased considerably. Standard image processing packages are often challenged by the size of these data. Dedicated methods are needed to leverage their extraordinary spatial resolution. Here, we introduce a flexible Python toolbox that implements a set of advanced techniques for high-resolution neuroimaging. With these tools, segmentation and laminar analysis of cortical MRI data can be performed at resolutions up to 500 µm in reasonable times. Comprehensive online documentation makes the toolbox easy to use and install. An extensive developer's guide encourages contributions from other researchers that will help to accelerate progress in the promising field of high-resolution neuroimaging.