ArticleNeuroinformatics2016
NSDF: Neuroscience Simulation Data Format.
Article in Neuroinformatics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed.
- Simulations of cortical networks using spatially extended conductance-based neuronal models.The Journal of physiology · 2023Review
- Efficient metadata mining of web-accessible neural morphologies.Progress in biophysics and molecular biology · 2022Article
- Brain Modeling ToolKit: An open source software suite for multiscale modeling of brain circuits.PLoS computational biology · 2020Article
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- The SONATA data format for efficient description of large-scale network models.PLoS computational biology · 2020Article
- NWB Query Engines: Tools to Search Data Stored in Neurodata Without Borders Format.Frontiers in neuroinformatics · 2020Article
- Article
- A Bit-Encoding Based New Data Structure for Time and Memory Efficient Handling of Spike Times in an Electrophysiological Setup.Neuroinformatics · 2018Article
- FindSim: A Framework for Integrating Neuronal Data and Signaling Models.Frontiers in neuroinformatics · 2018Article
- Experimental Directory Structure (Exdir): An Alternative to HDF5 Without Introducing a New File Format.Frontiers in neuroinformatics · 2018Article
- MEA Viewer: A high-performance interactive application for visualizing electrophysiological data.PloS one · 2018Article
- Collection of Simulated Data from a Thalamocortical Network Model.Neuroinformatics · 2017Article
- Reproducibility in Computational Neuroscience Models and Simulations.IEEE transactions on bio-medical engineering · 2016Article
- Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks.Journal of neurophysiology · 2016Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Data interchange is emerging as an essential aspect of modern neuroscience. In the areas of computational neuroscience and systems biology there are multiple model definition formats, which have contributed strongly to the development of an ecosystem of simulation and analysis tools. Here we report the development of the Neuroscience Simulation Data Format (NSDF) which extends this ecosystem to the data generated in simulations. NSDF is designed to store simulator output across scales: from multiscale chemical and electrical signaling models, to detailed single-neuron and network models, to abstract neural nets. It is self-documenting, efficient, modular, and scalable, both in terms of novel data types and in terms of data volume. NSDF is simulator-independent, and can be used by a range of standalone analysis and visualization tools. It may also be used to store variety of experimental data. NSDF is based on the widely used HDF5 (Hierarchical Data Format 5) specification and is open, platform-independent, and portable.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.