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DataLad: distributed system for joint management of code, data, and their relationship

Yaroslav Halchenko, Kyle Meyer, Benjamin Poldrack, Debanjum Solanky, Adina Wagner, Jason Gors, Dave MacFarlane, Dorian Pustina, Vanessa Sochat, Satrajit Ghosh, Christian Mönch, Christopher Markiewicz (+19 others)
2021 Journal of Open Source Software  
Acknowledgements We express our gratitude to Joey Hess for the development and maintenance of git-annex, and for years of productive collaboration with the DataLad team.  ...  , bug reports, recommendations, and promotion of DataLad.  ...  Summary DataLad is a Python-based tool for the joint management of code, data, and their relationship, built on top of a versatile system for data logistics (git-annex) and the most popular distributed  ... 
doi:10.21105/joss.03262 fatcat:catl43jhpnehfhkb5e32uiqmrq

Management and Quality Control of Large Neuroimaging Datasets: Developments From the Barcelonaβeta Brain Research Center

Jordi Huguet, Carles Falcon, David Fusté, Sergi Girona, David Vicente, José Luis Molinuevo, Juan Domingo Gispert, Grégory Operto, for the ALFA Study
2021 Frontiers in Neuroscience  
In particular for organizations with their own imaging equipment, setting up such a system is still a hard task, and relying on cloud-based solutions, albeit promising, is not always possible.  ...  This paper proposes a practical model guided by core principles including user involvement, lightweight footprint, modularity, reusability, and facilitated data sharing.  ...  The overall system is built around XNAT, which is among the most broadly deployed open source systems for managing medical imaging data in research (Nichols and Pohl, 2015) .  ... 
doi:10.3389/fnins.2021.633438 pmid:33935631 pmcid:PMC8081968 fatcat:pg4eebsowzfybf2rjbcx7x5zae

ENIGMA + COINSTAC: Improving Findability, Accessibility, Interoperability, and Re-usability

Jessica A. Turner, Vince D. Calhoun, Paul M. Thompson, Neda Jahanshad, Christopher R. K. Ching, Sophia I. Thomopoulos, Eric Verner, Gregory P. Strauss, Anthony O. Ahmed, Matthew D. Turner, Sunitha Basodi, Judith M. Ford (+6 others)
2021 Neuroinformatics  
AbstractThe FAIR principles, as applied to clinical and neuroimaging data, reflect the goal of making research products Findable, Accessible, Interoperable, and Reusable.  ...  We first present how ENIGMA and COINSTAC support the FAIR principles, and then showcase their integration with a decentralized meta-analysis of sex differences in negative symptom severity in schizophrenia  ...  It is not a data management and sharing system for neuroimaging studies like XNAT or COINS. COINSTAC is not a pipeline design framework for centralized data like the LONI IDA or CPAC, for example.  ... 
doi:10.1007/s12021-021-09559-y pmid:34846691 fatcat:l3732gc4obevdiu5z7tvijumku

A Modular Workflow for Performance Benchmarking of Neuronal Network Simulations [article]

Jasper Albers, Jari Pronold, Anno Christopher Kurth, Stine Brekke Vennemo, Kaveh Haghighi Mood, Alexander Patronis, Dennis Terhorst, Jakob Jordan, Susanne Kunkel, Tom Tetzlaff, Markus Diesmann, Johanna Senk
2021 arXiv   pre-print
This process goes hand in hand with advancements in the theory of neuronal networks and increasing availability of detailed anatomical data on brain connectivity.  ...  The framework records benchmarking data and metadata in a unified way to foster reproducibility.  ...  ACKNOWLEDGMENTS We thank the members of the NEST development community for their contributions to the concepts and implementation of the NEST simulator, and our colleagues in the Simulation and Data Laboratory  ... 
arXiv:2112.09018v1 fatcat:sesktbij4rc3je5kk22gq6e5du

A Modular Workflow for Performance Benchmarking of Neuronal Network Simulations

Jasper Albers, Jari Pronold, Anno Christopher Kurth, Stine Brekke Vennemo, Kaveh Haghighi Mood, Alexander Patronis, Dennis Terhorst, Jakob Jordan, Susanne Kunkel, Tom Tetzlaff, Markus Diesmann, Johanna Senk
2022 Frontiers in Neuroinformatics  
This process goes hand in hand with advancements in the theory of neuronal networks and increasing availability of detailed anatomical data on brain connectivity.  ...  The framework records benchmarking data and metadata in a unified way to foster reproducibility.  ...  ACKNOWLEDGMENTS We thank the members of the NEST development community for their contributions to the concepts and implementation of the NEST simulator, and our colleagues in the Simulation and Data Laboratory  ... 
doi:10.3389/fninf.2022.837549 fatcat:quwde7jlhzgf3prl2zp3gwvzji

AT-NeuroEAE: A Joint Extraction Model of Events With Attributes for Research Sharing-Oriented Neuroimaging Provenance Construction

Shaofu Lin, Zhe Xu, Ying Sheng, Lihong Chen, Jianhui Chen
2022 Frontiers in Neuroscience  
A group of neuroimaging event-containing attributes are defined to model the whole process of neuroimaging researches, and a joint extraction model based on deep adversarial learning, called AT-NeuroEAE  ...  Finally, a group of experiments were performed on the real data set from the journal PLOS ONE.  ...  Maumet et al. (2019) built a JSON-LD representation for NIDM-Results data and exposed it to the neuroimaging data management tool Datalad.  ... 
doi:10.3389/fnins.2021.739535 pmid:35321479 pmcid:PMC8936590 fatcat:t7dpaarcrnbzziv4yiqpu2xibe

An open, analysis-ready, and quality controlled resource for pediatric brain white-matter research [article]

Adam Richie-Halford, Matthew Cieslak, Lei Ai, Sendy Caffarra, Sydney Covitz, Alexandre R. Franco, Iliana I. Karipidis, John Kruper, Michael Milham, Bárbara Avelar-Pereira, Ethan Roy, Valerie J. Sydnor (+4 others)
2022 bioRxiv   pre-print
Data quality plays a key role in the analysis of dMRI, and we provide automated quality control (QC) scores for every scan, as part of the data release.  ...  Altogether, this work both delivers a resource for transdiagnostic research in brain connectivity and pediatric mental health and serves as a novel tool for automated QC of large datasets.  ...  Acknowledgments We would like to thank Anisha Keshavan for useful discussions of community science and webbased quality control and for her work on SwipesForScience. This manuscript was prepared using  ... 
doi:10.1101/2022.02.24.481303 fatcat:e66jtpwbundkhk3ukylbe5kbve

Lexikos 13

Lexikos Lexikos
2012 Lexikos  
If one studies the distribution of the number of languages that have online dictionaries per country, the data shown in Table 1 are arrived at.  ...  The differences came from minor differences of culture and the necessity to squash a multi-dimensional system of relationships into a two dimensional list.  ...  Originality Only original contributions will be considered for publication. Authors bear full responsibility for the originality and factual content of their contributions.  ... 
doi:10.5788/13-0-749 fatcat:wzuuozw4cbapdpv7mvzfun3gdi