Interactive volume exploration of petascale microscopy data streams using a visualization-driven virtual memory approach

Handle URI:
http://hdl.handle.net/10754/562438
Title:
Interactive volume exploration of petascale microscopy data streams using a visualization-driven virtual memory approach
Authors:
Hadwiger, Markus ( 0000-0003-1239-4871 ) ; Beyer, Johanna; Jeong, Wonki; Pfister, Hanspeter
Abstract:
This paper presents the first volume visualization system that scales to petascale volumes imaged as a continuous stream of high-resolution electron microscopy images. Our architecture scales to dense, anisotropic petascale volumes because it: (1) decouples construction of the 3D multi-resolution representation required for visualization from data acquisition, and (2) decouples sample access time during ray-casting from the size of the multi-resolution hierarchy. Our system is designed around a scalable multi-resolution virtual memory architecture that handles missing data naturally, does not pre-compute any 3D multi-resolution representation such as an octree, and can accept a constant stream of 2D image tiles from the microscopes. A novelty of our system design is that it is visualization-driven: we restrict most computations to the visible volume data. Leveraging the virtual memory architecture, missing data are detected during volume ray-casting as cache misses, which are propagated backwards for on-demand out-of-core processing. 3D blocks of volume data are only constructed from 2D microscope image tiles when they have actually been accessed during ray-casting. We extensively evaluate our system design choices with respect to scalability and performance, compare to previous best-of-breed systems, and illustrate the effectiveness of our system for real microscopy data from neuroscience. © 1995-2012 IEEE.
KAUST Department:
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division; Computer Science Program; Visual Computing Center (VCC)
Publisher:
Institute of Electrical and Electronics Engineers (IEEE)
Journal:
IEEE Transactions on Visualization and Computer Graphics
Issue Date:
Dec-2012
DOI:
10.1109/TVCG.2012.240
Type:
Article
ISSN:
10772626
Appears in Collections:
Articles; Computer Science Program; Visual Computing Center (VCC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorHadwiger, Markusen
dc.contributor.authorBeyer, Johannaen
dc.contributor.authorJeong, Wonkien
dc.contributor.authorPfister, Hanspeteren
dc.date.accessioned2015-08-03T10:38:13Zen
dc.date.available2015-08-03T10:38:13Zen
dc.date.issued2012-12en
dc.identifier.issn10772626en
dc.identifier.doi10.1109/TVCG.2012.240en
dc.identifier.urihttp://hdl.handle.net/10754/562438en
dc.description.abstractThis paper presents the first volume visualization system that scales to petascale volumes imaged as a continuous stream of high-resolution electron microscopy images. Our architecture scales to dense, anisotropic petascale volumes because it: (1) decouples construction of the 3D multi-resolution representation required for visualization from data acquisition, and (2) decouples sample access time during ray-casting from the size of the multi-resolution hierarchy. Our system is designed around a scalable multi-resolution virtual memory architecture that handles missing data naturally, does not pre-compute any 3D multi-resolution representation such as an octree, and can accept a constant stream of 2D image tiles from the microscopes. A novelty of our system design is that it is visualization-driven: we restrict most computations to the visible volume data. Leveraging the virtual memory architecture, missing data are detected during volume ray-casting as cache misses, which are propagated backwards for on-demand out-of-core processing. 3D blocks of volume data are only constructed from 2D microscope image tiles when they have actually been accessed during ray-casting. We extensively evaluate our system design choices with respect to scalability and performance, compare to previous best-of-breed systems, and illustrate the effectiveness of our system for real microscopy data from neuroscience. © 1995-2012 IEEE.en
dc.publisherInstitute of Electrical and Electronics Engineers (IEEE)en
dc.subjecthigh-resolution microscopyen
dc.subjecthigh-throughput imagingen
dc.subjectneuroscienceen
dc.subjectPetascale volume explorationen
dc.titleInteractive volume exploration of petascale microscopy data streams using a visualization-driven virtual memory approachen
dc.typeArticleen
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Divisionen
dc.contributor.departmentComputer Science Programen
dc.contributor.departmentVisual Computing Center (VCC)en
dc.identifier.journalIEEE Transactions on Visualization and Computer Graphicsen
dc.contributor.institutionUlsan National Institute of Science and Technology (UNIST), South Koreaen
dc.contributor.institutionSchool of Engineering and Applied Sciences at Harvard University, United Statesen
kaust.authorHadwiger, Markusen
kaust.authorBeyer, Johannaen
All Items in KAUST are protected by copyright, with all rights reserved, unless otherwise indicated.