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Large-scale and drift-free surface reconstruction using online subvolume registration

Nicola Fioraio, Jonathan Taylor, Andrew Fitzgibbon, Luigi Di Stefano, Shahram Izadi
2015 2015 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)  
We show qualitative results on many large scale scenes, highlighting the lack of error and drift in our reconstructions.  ...  We compare to state of the art techniques and demonstrate large-scale dense surface reconstruction "in the dark", a capability not offered by RGB-D techniques.  ...  In all, this provides new capabilities for drift-free online corrected 3D surface representations at large scales, which link together the advantages of volumetric techniques for cheap and high quality  ... 
doi:10.1109/cvpr.2015.7299077 dblp:conf/cvpr/FioraioTFSI15 fatcat:ykpim6nz2ng45hgvsjcyaijz5a

C-blox: A Scalable and Consistent TSDF-based Dense Mapping Approach [article]

Alexander Millane, Zachary Taylor, Helen Oleynikova, Juan Nieto, Roland Siegwart, César Cadena
2018 arXiv   pre-print
These subvolumes are localized through feature-based camera tracking and bundle adjustment.  ...  However, during operation over longer missions, reconstructions can easily become inconsistent due to accumulated camera tracking error and delayed loop closure.  ...  This approach is not new, going back at least to the Atlas framework [16] and DenseSLAM [17] where submapping was used to extend graph-based SLAM to large scale environments.  ... 
arXiv:1710.07242v3 fatcat:6hly5mey45dmlmtzmg3qg3zvay

Challenges of microtome-based serial block-face scanning electron microscopy in neuroscience

2015 Journal of Microscopy  
While volume EM techniques are advancing, they are generating large data sets on the terabyte scale that require new image processing workflows and analysis tools.  ...  In this review, we present the recent advances in SBEM for circuit reconstruction in neuroscience and an overview of existing image processing and analysis pipelines.  ...  A compromise in the amount of overlap has to be found because the overlaps need to be large enough to allow for correct image registration and stitching.  ... 
doi:10.1111/jmi.12244 pmid:25907464 pmcid:PMC4745002 fatcat:7gztetuqnbdmtoorwo74ns3dby

Deformable image registration for cone-beam CT guided transoral robotic base-of-tongue surgery

S Reaungamornrat, W P Liu, A S Wang, Y Otake, S Nithiananthan, A Uneri, S Schafer, E Tryggestad, J Richmon, J M Sorger, J H Siewerdsen, R H Taylor
2013 Physics in Medicine and Biology  
The Demons step refined registration primarily in deeper portions of the tongue further from the surface and hyoid bone.  ...  Registration accuracy was best across the superior aspect of the tongue and in proximity to the hyoid (by virtue of GM registration of surface points on these structures).  ...  For example, a coherent point drift (CPD) algorithm could be employed in the point set registration (Myronenko and Song 2010) .  ... 
doi:10.1088/0031-9155/58/14/4951 pmid:23807549 pmcid:PMC3990286 fatcat:utf7se7bznbrnjiakhgzqhamkq

Automated imaging of extended tissue volumes using confocal microscopy

Gregory B. Sands, Dane A. Gerneke, Darren A. Hooks, Colin R. Green, Bruce H. Smaill, Ian J. Legrice
2005 Microscopy research and technique (Print)  
The computer-controlled system, which integrates a confocal microscope and an ultramill using a high-precision translation stage, inherently preserves specimen registration, and the user control interface  ...  enables flexible specification of imaging protocols over a wide range of scales and resolutions.  ...  We wish to acknowledge Leica Microsystems for advice and support for the confocal microscope, and Hillary Holloway (Department of Anatomy with Radiology, The University of Auckland) for the development  ... 
doi:10.1002/jemt.20200 pmid:16170824 fatcat:iyhz3thagfcbncx7ubssz7gm6y

ElasticFusion: Real-time dense SLAM and light source estimation

Thomas Whelan, Renato F Salas-Moreno, Ben Glocker, Andrew J Davison, Stefan Leutenegger
2016 The international journal of robotics research  
Our system is capable of capturing comprehensive dense globally consistent surfel-based maps of room scale environments and beyond explored using an RGB-D camera in an incremental online fashion, without  ...  arbitrary drift and maintain global consistency.  ...  The authors would like to thank Richard Newcombe for his input and suggestions.  ... 
doi:10.1177/0278364916669237 fatcat:xn52ynkwnfen3b47redhcqanay

A Complete Electron Microscopy Volume of the Brain of Adult Drosophila melanogaster

Zhihao Zheng, J. Scott Lauritzen, Eric Perlman, Camenzind G. Robinson, Matthew Nichols, Daniel Milkie, Omar Torrens, John Price, Corey B. Fisher, Nadiya Sharifi, Steven A. Calle-Schuler, Lucia Kmecova (+11 others)
2018 Cell  
Its 100,000-neuron brain is a large but tractable target for comprehensive neural circuit mapping.  ...  These reconstructions show that this freely available EM volume supports mapping of brain-spanning circuits, which will significantly accelerate Drosophila neuroscience.  ...  For large-scale rendering and coordinate mapping, we used Java stand-alone and Spark framework clients to allow it to be processed in bulk on a cluster.  ... 
doi:10.1016/j.cell.2018.06.019 pmid:30033368 pmcid:PMC6063995 fatcat:me3wn3utfrbuhi6byynila624a

Nanoporous gold: a hierarchical and multiscale 3D test pattern for characterizing X-ray nano-tomography systems

Emanuel Larsson, Doğa Gürsoy, Francesco De Carlo, Erica Lilleodden, Malte Storm, Fabian Wilde, Kaixiong Hu, Martin Müller, Imke Greving
2019 Journal of Synchrotron Radiation  
Here it is shown that nanoporous gold (NPG) can be used as an ideal 3D test pattern for evaluating and optimizing the performance of a TXM instrument for hard X-rays at a synchrotron beamline.  ...  Unique features of NPG, such as hierarchical structures at multiple length scales and high absorbing capabilities, makes it an ideal choice for characterization, which involves a combination of a rapid-alignment  ...  Funding information The following funding is acknowledged: Deutsche Forschungsgemeinschaft within SFB 986 'Tailor-Made Multi-Scale Materials Systems: M3', projects B2, B4 and Z2.  ... 
doi:10.1107/s1600577518015242 fatcat:um5pdjolvbh5jppxud6pya6ukq

A Complete Electron Microscopy Volume Of The Brain Of Adult Drosophila melanogaster [article]

Zhihao Zheng, J. Scott Lauritzen, Eric Perlman, Camenzind G. Robinson, Matthew Nichols, Daniel Milkie, Omar Torrens, John Price, Corey B. Fisher, Nadiya Sharifi, Steven A. Calle-Schuler, Lucia Kmecova (+11 others)
2017 bioRxiv   pre-print
Drosophila melanogaster has a rich repertoire of innate and learned behaviors. Its 100,000-neuron brain is a large but tractable target for comprehensive neural circuit mapping.  ...  We developed a custom high-throughput EM platform and imaged the entire brain of an adult female fly.  ...  For large scale rendering and coordinate mapping, we used Java stand-261 alone and Spark framework clients to allow it to be processed in bulk on a cluster. 262 263 Calibration mosaics 264 In our TEMCA2  ... 
doi:10.1101/140905 fatcat:fqzvdhcia5bxbdydr4a77x6xwi

Robust, globally consistent and fully automatic multi-image registration and montage synthesis for 3-D multi-channel images

2011 Journal of Microscopy  
registrations withstanding changes in scale, rotation, translation and shear by using a 3-D affine transformation model; (3) achieves complete automation, and does not require any parameter settings;  ...  (4) handles low and variable overlaps (5-15%) between adjacent images, minimizing the number of images required to cover a tissue region; (5) has the self-diagnostic ability to recognize registration failures  ...  Tissue processing and image acquisition at the University of Arizona was supported by the McKnight Brain Research Foundation and NIA grants AG036053 and AG033460, the state of Arizona and Arizona Department  ... 
doi:10.1111/j.1365-2818.2011.03489.x pmid:21361958 pmcid:PMC3566673 fatcat:4w5udnnuybb4pdqmu36xuyp5tm

Signal Formation Processes in Micromegas Detectors and Quality Control for large size Detector Construction for the ATLAS New Small Wheel [article]

Fabian Kuger
2017 arXiv   pre-print
This will be the first large scale application of Micromegas in one of the major LHC experiments.  ...  The second part is dedicated to the challenges arising with the large scale Micro- megas production for the ATLAS NSW.  ...  This yields a stable and dense grid of accurate positions and allows for an online reconstruction of the coordinates of each chamber with a precision ≤30 µm.  ... 
arXiv:1708.01624v2 fatcat:jotewwh6c5evvhwd7hleuipjaa

lapdMouse: associating lung anatomy with local particle deposition in mice

Christian Bauer, Melissa A. Krueger, Wayne J.E. Lamm, Robb William Glenny, Reinhard R. Beichel
2019 Journal of applied physiology  
All data sets are available online in the lapdMouse archive for download. The presented approach enables linking relative particle deposition to anatomical structures like airways.  ...  (2 μm: 15, 1 μm: 16, and 0.5 μm: 3).  ...  ., parts from the prior tissue slice stuck on the sample's block-face during imaging) were manually identified and removed by using interpolation between neighboring shard-free image slices (Fig. 3) .  ... 
doi:10.1152/japplphysiol.00615.2019 pmid:31774357 pmcid:PMC7052583 fatcat:nj5qlw2nl5ernmqam2332czdb4

Automatic alignment of standard views in 3D echocardiograms using real-time tracking

Fredrik Orderud, Hans Torp, Stein Inge Rabben, Stephen A. McAleavey, Jan D'hooge
2009 Medical Imaging 2009: Ultrasonic Imaging and Signal Processing  
The framework has been successfully demonstrated to fit ellipsoids, spline surfaces, active-shape surfaces and subdivision surfaces to image data.  ...  The main goal of this thesis has been to explore the possibilities of using state estimation methods for segmentation and tracking of structures in volumetric data with deformable models.  ...  and Technology (NTNU) for access to the datasets used.  ... 
doi:10.1117/12.805380 fatcat:yyzsi6dvsrhclhmqjo5axjigqi

Correction of motion effects in free breathing thoracic CT and PET imaging for radiotherapy [article]

Martin Skovmos Nielsen
2016 The PhD Series of theThe PhD Series of the Faculty of Medicine  
The authors alone are responsible for the content and writing of the paper. Acknowledgements  ...  Acknowledgements The authors acknowledge The Lundbeck Foundation Center for Interventional Research in Radiation Oncology (CIRRO), The Danish Graduate School in Clinical Oncology (DAFKO) and PNN Medical  ...  The Affi ne image registration use the rigid linear transformation combined with isotropic scaling and shearing transformations [8] .  ... 
doi:10.5278/ fatcat:w6ucxeilkzc3bawgrss5zs6xqi

TU-B-I-617-01: High Field MRI - Technology, Applications, Safety, and Limitations

RJ Stafford
2005 Medical Physics (Lancaster)  
The most consistent relative amplitudes were found using both instruction techniques. Significant drift in amplitude was observed under free breathing conditions.  ...  The challenge involves the ability to solve a large-scale treatment planning problem.  ...  Surface-based and intensity-based registration methods have also been applied.  ... 
doi:10.1118/1.1999700 fatcat:yub56igoe5cl3cthdpzwrdvjp4
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