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open-neurodata.yaml
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open-neurodata.yaml
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Name: Open NeuroData
Description: This bucket contains multiple neuroimaging datasets (as Neuroglancer Precomputed Volumes) across multiple modalities and scales, ranging from nanoscale (electron microscopy), to microscale (cleared lightsheet microscopy and array tomography), and mesoscale (structural and functional magnetic resonance imaging). Additionally, many of the datasets include segmentations and meshes.
Contact: [email protected]
Documentation: https://neurodata.io/help/download/
ManagedBy: "[NeuroData](https://neurodata.io/ocp)"
UpdateFrequency: The dataset may be updated with additional or corrected data on a need-to-update basis.
Tags:
- biology
- image processing
- neuroimaging
- neuroscience
- electron microscopy
- lightsheet microscopy
- magnetic resonance imaging
- array tomography
License: ODC-By v1.0 unless otherwise specified
Resources:
- Description: Neuroglancer precomputed volumes in a public bucket
ARN: arn:aws:s3:::open-neurodata
Region: us-east-1
Type: S3 Bucket
DataAtWork:
Tutorials:
- Title: Download
URL: https://neurodata.io/help/download/
AuthorName: Benjamin Falk
AuthorURL: https://github.com/falkben
- Title: Visualization using Neuroglancer
URL: https://neurodata.io/help/visualization/
AuthorName: Benjamin Falk
AuthorURL: https://github.com/falkben
Tools & Applications:
- Title: Neuroglancer
URL: https://github.com/google/neuroglancer
AuthorName: Jeremy Maitin-Shepard
AuthorURL: https://github.com/jbms
- Title: Igneous
URL: https://github.com/seung-lab/igneous
AuthorName: William Silversmith
AuthorURL: https://github.com/william-silversmith
- Title: CloudVolume
URL: https://github.com/seung-lab/cloud-volume
AuthorName: William Silversmith
AuthorURL: https://github.com/william-silversmith
Publications:
- Title: A Community-Developed Open-Source Computational Ecosystem for Big Neuro Data
URL: https://www.nature.com/articles/s41592-018-0181-1
AuthorName: J. T. Vogelstein, E. Perlman, B. Falk, A. Baden, W. Gray Roncal, V. Chandrashekhar, F. Collman, S. Seshamani, J. L. Patsolic, K. Lillaney, M. Kazhdan, R. Hider, D. Pryor, J. Matelsky, T. Gion, P. Manavalan, B. Wester, M. Chevillet, E. T. Trautman, K. Khairy, E. Bridgeford, D. M. Kleissas, D. J. Tward, A. K. Crow, B. Hsueh, M. A. Wright, M. I. Miller, S. J. Smith, R. J. Vogelstein, K. Deisseroth, and R. Burns
AuthorURL:
- Title: "To the Cloud! A Grassroots Proposal to Accelerate Brain Science Discovery"
URL: https://doi.org/10.1016/j.neuron.2016.10.033
AuthorName: J. T. Vogelstein, B. Mensh, M. Häusser, N. Spruston, A. C. Evans, K. Kording, K. Amunts, C. Ebell, J. Muller, M. Telefont, S. Hill, S. P. Koushika, C. Calì, P. A. Valdés-Sosa, P. B. Littlewood, C. Koch, S. Saalfeld, A. Kepecs, H. Peng, Y. O. Halchenko, G. Kiar, M. M. Poo, J. B. Poline, M. P. Milham, A. P. Schaffer, R. Gidron, H. Okano, V. D. Calhoun, M. Chun, D. M. Kleissas, R. J. Vogelstein, E. Perlman, R. Burns, R. Huganir, and M. I. Miller
AuthorURL:
- Title: "From cosmos to connectomes: The evolution of data-intensive science"
URL: https://doi.org/10.1016/j.neuron.2014.08.045
AuthorName: R. Burns, J. T. Vogelstein, and A. S. Szalay
AuthorURL:
- Title: "The Open Connectome Project Data Cluster: Scalable Analysis and Vision for High-Throughput Neuroscience"
URL: https://arxiv.org/abs/1306.3543
AuthorName: R. Burns, W. G. Roncal, D. Kleissas, K. Lillaney, P. Manavalan, E. Perlman, D. R. Berger, D. D. Bock, K. Chung, L. Grosenick, N. Kasthuri, N. C. Weiler, K. Deisseroth, M. Kazhdan, J. Lichtman, R. C. Reid, S. J. Smith, A. S. Szalay, J. T. Vogelstein, and R. J. Vogelstein.
AuthorURL: