Towards real-time tomography: Fast reconstruction algorithms and GPU implementation

Marone, Federica; Hintermüller, Christoph; Geus, Roman

doi:10.1109/nssmic.2008.4775239

Cited by 10 publications

(7 citation statements)

References 7 publications

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“…The stability of the microscope and the precision of the sample stages allow one to feed the angular projections directly into the standard tomographic reconstruction algorithms. The Fourier based tomographic reconstruction routine (Marone et al, 2008) used for parallel beam tomography at the TOMCAT beamline was applied to all data. The resulting volumes capture the spatial distribution of structures based on their phase retardation action on the probing X-rays.…”

Section: Data Processingmentioning

confidence: 99%

X-ray mosaic nanotomography of large microorganisms

Quaroni

Marone

Irvine

et al. 2012

Journal of Structural Biology

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Section: Data Processingmentioning

confidence: 99%

X-ray mosaic nanotomography of large microorganisms

Quaroni

Marone

Irvine

et al. 2012

Journal of Structural Biology

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“…All the reconstructions in Fig. 1 were done with the Fourier-based tomographic reconstruction method that utilizes prolate functions for interpolation in Fourier space [7]. The signal-to-noise ratio (SNR) and the spatial resolution have been used as figures of merit in the evaluation.…”

Section: Resultsmentioning

confidence: 99%

Following Dynamic Processes by X-ray Tomographic Microscopy with Sub-second Temporal Resolution

Marone¹,

Haberthür²,

Schittny

et al. 2011

AIP Conference Proceedings

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Abstract. Several non-destructive imaging techniques offer the possibility to observe rapid phenomena in real time, yet most of these techniques fail when it comes to bulky samples and micrometer precision in three dimensions. Therefore there is clearly a need to develop approaches that address such conditions. We identified the large potential that lies in synchrotron-based x-rays as a probe and developed a direct-space tomographic instrument suitable to provide sub-second temporal resolution with several-micrometers spatial resolution. Selected applications from the field of biology and material science are shown in order to demonstrate the unique capabilities in generating three-dimensional images with very high quality making image segmentation and analysis possible for samples that could, until now, only be studied in two dimensions due to the occurrence of rapid structural changes.

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“…For this purpose, fast tomographic reconstruction procedures are being developed [10] with the potential to allow 3D visualisation synchronized with the acquisition. The reconstruction algorithm based on the Fourier Transform method and implemented to the Graphical Processing Unit reduce the reconstruction time of one tomographic slice with 4Mpixels down to 0.5 s on a single CPU.…”

Section: Discussionmentioning

confidence: 99%

Real Time Tomography at the Swiss Light Source

Marone

Stampanoni

2010

AIP Conference Proceedings

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The penetrating power of X-rays coupled with the high flux of 3rd generation synchrotron sources makes X-ray tomography to excel among fast imaging methods . To exploit this asset of synchrotron sources is the motivation for setting up an ultra-fast tomography endstation at the TOMCAT beamline. The state of the art instruments at synchrotron sources offer routinely a temporal resolution of tens of seconds in tomography. For a number of applications, for example biomedical studies, the relevant time scales (breathing, heartbeat) are rather in the range of 0.5-2 seconds. To overcome motion artifacts when imaging such systems a new ultra-fast tomographic data acquisition scheme is being developed at the TOMCAT beamline. We can acquire a full set of projections at sub-second timescale in monochromatic or white-beam configuration. We present a feasibility study with the ultimate aim to achieve sub-second temporal resolution in 3D without significant deterioration of the spatial resolution. Abstract. The penetrating power of X-rays coupled with the high flux of 3rd generation synchrotron sources makes Xray tomography to excel among fast imaging methods . To exploit this asset of synchrotron sources is the motivation for setting up an ultra-fast tomography endstation at the TOMCAT beamline. The state of the art instruments at synchrotron sources offer routinely a temporal resolution of tens of seconds in tomography. For a number of applications, for example biomedical studies, the relevant time scales (breathing, heartbeat) are rather in the range of 0.5-2 seconds. To overcome motion artifacts when imaging such systems a new ultra-fast tomographic data acquisition scheme is being developed at the TOMCAT beamline. We can acquire a full set of projections at sub-second timescale in monochromatic or whitebeam configuration. We present a feasibility study with the ultimate aim to achieve sub-second temporal resolution in 3D without significant deterioration of the spatial resolution. For the first time, the 3D dynamics of the very early stages of a quickly aging liquid foam can be visualised with high quality and sufficiently large field of view.

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Towards real-time tomography: Fast reconstruction algorithms and GPU implementation

Cited by 10 publications

References 7 publications

X-ray mosaic nanotomography of large microorganisms

X-ray mosaic nanotomography of large microorganisms

Following Dynamic Processes by X-ray Tomographic Microscopy with Sub-second Temporal Resolution

Real Time Tomography at the Swiss Light Source

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