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. 2018 Nov;15(11):846-847.
doi: 10.1038/s41592-018-0181-1.

A community-developed open-source computational ecosystem for big neuro data

Joshua T Vogelstein  1 , Eric Perlman  2 , Benjamin Falk  2 , Alex Baden  2 , William Gray Roncal  3 , Vikram Chandrashekhar  2 , Forrest Collman  4 , Sharmishtaa Seshamani  4 , Jesse L Patsolic  2 , Kunal Lillaney  2 , Michael Kazhdan  2 , Robert Hider Jr  3 , Derek Pryor  3 , Jordan Matelsky  3 , Timothy Gion  3 , Priya Manavalan  3 , Brock Wester  3 , Mark Chevillet  5 , Eric T Trautman  6 , Khaled Khairy  6 , Eric Bridgeford  2 , Dean M Kleissas  7 , Daniel J Tward  2 , Ailey K Crow  8 , Brian Hsueh  8 , Matthew A Wright  8 , Michael I Miller  2 , Stephen J Smith  4 , R Jacob Vogelstein  7 , Karl Deisseroth  8 , Randal Burns  2
Affiliations

A community-developed open-source computational ecosystem for big neuro data

Joshua T Vogelstein et al. Nat Methods. 2018 Nov.
No abstract available

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Conflict of interest statement

Competing interests

D.M.K. and R.J.V. are employed by Gigantum; this company provided support in the form of salaries for these authors, but did not have any additional role in the study design, data collection and analysis, decision to publish, or preparation of the manuscript.

Figures

Fig. 1 |
Fig. 1 |. NeuroData’s open-source software ecosystem and example visualizations.
a, NeuroData’s open-source software ecosystem. EM, electron microscopy; Hist., histology; AT, array tomography. b, Image of mouse brain tissue processed with array tomography including multi-spectral light microscopy with electron microscopy. Synapses were labeled manually. c, A section of the Allen Reference Atlas registered to an image obtained via whole-brain CLARITY of a mouse. All cell bodies were detected by machine vision.
See this image and copyright information in PMC

References

    1. Burns R et al. The open connectome project data cluster: scalable analysis and vision for high-throughput neuroscience. In Proc. 25th International Conference on Scientific and Statistical Database Management (eds Szalay A et al.) Article 27 (ACM, New York, 2013). - PMC - PubMed
    1. Collman F et al. J. Neurosci 35, 5792–5807 (2015). - PMC - PubMed
    1. Simhal AK et al. PLoS Comput. Biol 13, e1005493 (2017). - PMC - PubMed
    1. Shen C et al. arXiv Preprint at https://arxiv.org/abs/1609.05148 (2016).
    1. Chung K et al. Nature 497, 332–337 (2013). - PMC - PubMed

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