An automated pipeline for the collection, transfer, and processing of large-scale tomography data

Ming Du; Rafael Vescovi; Ryan Chard; Narayanan Kasthuri; Chris Jacobsen; Eva Dyer; Dogˇa Gu¨rsoy

doi:10.1364/BRAIN.2018.BF4C.2

An automated pipeline for the collection, transfer, and processing of large-scale tomography data

Ming Du^*, Rafael Vescovi, Ryan Chard, Narayanan Kasthuri, Chris Jacobsen, Eva Dyer, Dogˇa Gu¨rsoy

^*Corresponding author for this work

Physics and Astronomy

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

1 Scopus citations

Abstract

We introduce an automated and scalable data collection, transfer, and processing pipeline for tomographic measurement of centimeter-sized mouse brains with sub-micrometer resolution. Parallelized computation is implemented in data processing to allow fast handling of tera-voxel sized datasets.

Original language	English (US)
Title of host publication	Optics and the Brain, BRAIN 2018
Publisher	Optica Publishing Group (formerly OSA)
ISBN (Print)	9781943580415
DOIs	https://doi.org/10.1364/BRAIN.2018.BF4C.2
State	Published - 2018
Event	Optics and the Brain, BRAIN 2018 - Hollywood, United States Duration: Apr 3 2018 → Apr 6 2018

Publication series

Name	Optics InfoBase Conference Papers
Volume	Part F88-BRAIN 2018
ISSN (Electronic)	2162-2701

Other

Other	Optics and the Brain, BRAIN 2018
Country/Territory	United States
City	Hollywood
Period	4/3/18 → 4/6/18

ASJC Scopus subject areas

Electronic, Optical and Magnetic Materials
Mechanics of Materials

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10.1364/BRAIN.2018.BF4C.2

Cite this

Du, M., Vescovi, R., Chard, R., Kasthuri, N., Jacobsen, C., Dyer, E., & Gu¨rsoy, D. (2018). An automated pipeline for the collection, transfer, and processing of large-scale tomography data. In Optics and the Brain, BRAIN 2018 (Optics InfoBase Conference Papers; Vol. Part F88-BRAIN 2018). Optica Publishing Group (formerly OSA). https://doi.org/10.1364/BRAIN.2018.BF4C.2

@inproceedings{c1f902bedee041a4adc81dfa260e2ab0,

title = "An automated pipeline for the collection, transfer, and processing of large-scale tomography data",

abstract = "We introduce an automated and scalable data collection, transfer, and processing pipeline for tomographic measurement of centimeter-sized mouse brains with sub-micrometer resolution. Parallelized computation is implemented in data processing to allow fast handling of tera-voxel sized datasets.",

author = "Ming Du and Rafael Vescovi and Ryan Chard and Narayanan Kasthuri and Chris Jacobsen and Eva Dyer and Dogˇa Gu¨rsoy",

note = "Publisher Copyright: {\textcopyright} OSA 2018.; Optics and the Brain, BRAIN 2018 ; Conference date: 03-04-2018 Through 06-04-2018",

year = "2018",

doi = "10.1364/BRAIN.2018.BF4C.2",

language = "English (US)",

isbn = "9781943580415",

series = "Optics InfoBase Conference Papers",

publisher = "Optica Publishing Group (formerly OSA)",

booktitle = "Optics and the Brain, BRAIN 2018",

}

Du, M, Vescovi, R, Chard, R, Kasthuri, N, Jacobsen, C, Dyer, E & Gu¨rsoy, D 2018, An automated pipeline for the collection, transfer, and processing of large-scale tomography data. in Optics and the Brain, BRAIN 2018. Optics InfoBase Conference Papers, vol. Part F88-BRAIN 2018, Optica Publishing Group (formerly OSA), Optics and the Brain, BRAIN 2018, Hollywood, United States, 4/3/18. https://doi.org/10.1364/BRAIN.2018.BF4C.2

An automated pipeline for the collection, transfer, and processing of large-scale tomography data. / Du, Ming; Vescovi, Rafael; Chard, Ryan et al.
Optics and the Brain, BRAIN 2018. Optica Publishing Group (formerly OSA), 2018. (Optics InfoBase Conference Papers; Vol. Part F88-BRAIN 2018).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

TY - GEN

T1 - An automated pipeline for the collection, transfer, and processing of large-scale tomography data

AU - Du, Ming

AU - Vescovi, Rafael

AU - Chard, Ryan

AU - Kasthuri, Narayanan

AU - Jacobsen, Chris

AU - Dyer, Eva

AU - Gu¨rsoy, Dogˇa

PY - 2018

Y1 - 2018

N2 - We introduce an automated and scalable data collection, transfer, and processing pipeline for tomographic measurement of centimeter-sized mouse brains with sub-micrometer resolution. Parallelized computation is implemented in data processing to allow fast handling of tera-voxel sized datasets.

AB - We introduce an automated and scalable data collection, transfer, and processing pipeline for tomographic measurement of centimeter-sized mouse brains with sub-micrometer resolution. Parallelized computation is implemented in data processing to allow fast handling of tera-voxel sized datasets.

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U2 - 10.1364/BRAIN.2018.BF4C.2

DO - 10.1364/BRAIN.2018.BF4C.2

M3 - Conference contribution

AN - SCOPUS:85047944655

SN - 9781943580415

T3 - Optics InfoBase Conference Papers

BT - Optics and the Brain, BRAIN 2018

PB - Optica Publishing Group (formerly OSA)

T2 - Optics and the Brain, BRAIN 2018

Y2 - 3 April 2018 through 6 April 2018

ER -

An automated pipeline for the collection, transfer, and processing of large-scale tomography data

Abstract

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Other

ASJC Scopus subject areas

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