[HTML][HTML] Open and reproducible neuroimaging: From study inception to publication

G Niso, R Botvinik-Nezer, S Appelhoff, A De La Vega… - NeuroImage, 2022 - Elsevier
Empirical observations of how labs conduct research indicate that the adoption rate of open
practices for transparent, reproducible, and collaborative science remains in its infancy. This …

Reproducibility in neuroimaging analysis: challenges and solutions

R Botvinik-Nezer, TD Wager - Biological Psychiatry: Cognitive …, 2023 - Elsevier
Recent years have marked a renaissance in efforts to increase research reproducibility in
psychology, neuroscience, and related fields. Reproducibility is the cornerstone of a solid …

The OpenNeuro resource for sharing of neuroscience data

CJ Markiewicz, KJ Gorgolewski, F Feingold, R Blair… - Elife, 2021 - elifesciences.org
The sharing of research data is essential to ensure reproducibility and maximize the impact
of public investments in scientific research. Here, we describe OpenNeuro, a BRAIN …

OME-Zarr: a cloud-optimized bioimaging file format with international community support

J Moore, D Basurto-Lozada, S Besson… - Histochemistry and Cell …, 2023 - Springer
A growing community is constructing a next-generation file format (NGFF) for bioimaging to
overcome problems of scalability and heterogeneity. Organized by the Open Microscopy …

brainlife. io: a decentralized and open-source cloud platform to support neuroscience research

S Hayashi, BA Caron, AS Heinsfeld, S Vinci-Booher… - Nature …, 2024 - nature.com
Neuroscience is advancing standardization and tool development to support rigor and
transparency. Consequently, data pipeline complexity has increased, hindering FAIR …

[HTML][HTML] Micapipe: A pipeline for multimodal neuroimaging and connectome analysis

RR Cruces, J Royer, P Herholz, S Larivière… - NeuroImage, 2022 - Elsevier
Multimodal magnetic resonance imaging (MRI) has accelerated human neuroscience by
fostering the analysis of brain microstructure, geometry, function, and connectivity across …

A biologist's guide to planning and performing quantitative bioimaging experiments

RA Senft, B Diaz-Rohrer, P Colarusso, L Swift… - PLoS …, 2023 - journals.plos.org
Technological advancements in biology and microscopy have empowered a transition from
bioimaging as an observational method to a quantitative one. However, as biologists are …

A guide to the BRAIN Initiative Cell Census Network data ecosystem

M Hawrylycz, ME Martone, GA Ascoli, JG Bjaalie… - PLoS …, 2023 - journals.plos.org
Characterizing cellular diversity at different levels of biological organization and across data
modalities is a prerequisite to understanding the function of cell types in the brain …

[HTML][HTML] Brain simulation as a cloud service: The Virtual Brain on EBRAINS

M Schirner, L Domide, D Perdikis, P Triebkorn… - NeuroImage, 2022 - Elsevier
Abstract The Virtual Brain (TVB) is now available as open-source services on the cloud
research platform EBRAINS (ebrains. eu). It offers software for constructing, simulating and …

TemplateFlow: FAIR-sharing of multi-scale, multi-species brain models

R Ciric, WH Thompson, R Lorenz, M Goncalves… - Nature …, 2022 - nature.com
Reference anatomies of the brain ('templates') and corresponding atlases are the foundation
for reporting standardized neuroimaging results. Currently, there is no registry of templates …