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Temporally-Coherent Surface Reconstruction via Metric-Consistent Atlases [article]

Jan Bednarik, Vladimir G. Kim, Siddhartha Chaudhuri, Shaifali Parashar, Mathieu Salzmann, Pascal Fua, Noam Aigerman
2021 arXiv   pre-print
We propose a method for the unsupervised reconstruction of a temporally-coherent sequence of surfaces from a sequence of time-evolving point clouds, yielding dense, semantically meaningful correspondences  ...  We represent the reconstructed surface as an atlas, using a neural network.  ...  Temporally-coherent surface reconstruction Atlases via a neural network.  ... 
arXiv:2104.06950v2 fatcat:llkobvl4rjcllohrufvdr5rke4

A Self-regulating Spatio-Temporal Filter for Volumetric Video Point Clouds [chapter]

Matthew Moynihan, Rafael Pagés, Aljosa Smolic
2020 Communications in Computer and Information Science  
This is achieved by using two-way temporal projection of edge-aware upsampled point clouds while imposing coherence and noise filtering via a windowed, self-regulating noise filter.  ...  Our results demonstrate that this approach produces temporally coherent, upsampled point clouds while mitigating both additive and unstructured noise.  ...  The reasoning behind this approach being that increasing the density of coherent points improves the accuracy of surface reconstruction algorithms such as Poisson Surface Reconstruction [16] and thus  ... 
doi:10.1007/978-3-030-41590-7_16 fatcat:uuozxj5qf5ev3cckmtqwii6xrq

Temporally-Consistent Surface Reconstruction using Metrically-Consistent Atlases [article]

Jan Bednarik, Noam Aigerman, Vladimir G. Kim, Siddhartha Chaudhuri, Shaifali Parashar, Mathieu Salzmann, Pascal Fua
2021 arXiv   pre-print
We propose a method for unsupervised reconstruction of a temporally-consistent sequence of surfaces from a sequence of time-evolving point clouds.  ...  We represent the reconstructed surfaces as atlases computed by a neural network, which enables us to establish correspondences between frames.  ...  Left: The reconstructed surfaces, textured with a consistent texture to exhibit the temporally-consistent correspondences between the surfaces.  ... 
arXiv:2111.06838v1 fatcat:qxpkltoanbepxdhnw2e2zgegsa

An automatic pipeline for atlas-based fetal and neonatal brain segmentation and analysis [article]

Urru, Andrea and Nakaki, Ayako and Benkarim, Oualid and Crovetto, Francesca and Segales, Laura and Comte, Valentin and Hahner, Nadine and Eixarch, Elisenda and Gratacós, Eduard and Crispi, Fàtima and Piella, Gemma and González Ballester (+1 others)
2022 arXiv   pre-print
We also report the creation of two new fetal atlases, and their use within the pipeline for atlas-based segmentation, based on novel registration methods.  ...  The pipeline is also able to extract cortical and pial surfaces and compute features, such as curvature, thickness, sulcal depth, and local gyrification index.  ...  This pipeline allows for a consistent and coherent fetal and neonatal segmentation in the same framework, for the analysis of perinatal data and thus with potential application to longitudinally acquired  ... 
arXiv:2205.07575v1 fatcat:riyk2obv45ahnks6y6jicjva5e

Towards Automatic Generation of 3D Models of Biological Objects Based on Serial Sections [chapter]

Vincent Jasper Dercksen, Cornelia Brüß, Detlev Stalling, Sabine Gubatz, Udo Seiffert, Hans-Christian Hege
2008 Mathematics and Visualization  
Models are created by performing the following steps: image stitching, slice alignment, elastic registration, image segmentation and surface reconstruction.  ...  with spatial or even spatio-temporal reference.  ...  Here we propose a coherent set of methods to reconstruct 3D surface models from high-resolution serial sections with minimal user interaction.  ... 
doi:10.1007/978-3-540-72630-2_1 fatcat:d6y46hxnunettplyzzklu5a3sa

Deep Implicit Volume Compression [article]

Danhang Tang and Saurabh Singh and Philip A. Chou and Christian Haene and Mingsong Dou and Sean Fanello and Jonathan Taylor and Philip Davidson and Onur G. Guleryuz and Yinda Zhang and Shahram Izadi and Andrea Tagliasacchi and Sofien Bouaziz and Cem Keskin
2020 arXiv   pre-print
To prevent topological errors, we losslessly compress the signs of the TSDF, which also upper bounds the reconstruction error by the voxel size.  ...  To compress the corresponding texture, we designed a fast block-based UV parameterization, generating coherent texture maps that can be effectively compressed using existing video compression algorithms  ...  Geometry compression We evaluate geometry compression using two different metrics: the Hausdorff metric (H) [11] measures the (max) worst-case reconstruction error via: H(S,Ŝ) = max max x∈Sv d(x,Ŝ),  ... 
arXiv:2005.08877v1 fatcat:m4f6koofzra4tk3osh47pukoxe

Principles and open questions in functional brain network reconstruction

Onerva Korhonen, Massimiliano Zanin, David Papo
2021 Human Brain Mapping  
Here, we review some fundamental conceptual underpinnings and technical issues associated with brain network reconstruction, and discuss how their mutual influence concurs in clarifying the organization  ...  However, endowing observed brain anatomy and dynamics with a complex network representation involves often covert theoretical assumptions and methodological choices which affect the way networks are reconstructed  ...  For source-space analysis, on the other hand, the dynamics of sources on the brain surface are first reconstructed via electromagnetic inverse modelling, also known as source reconstruction (for a review  ... 
doi:10.1002/hbm.25462 pmid:34013636 pmcid:PMC8249902 fatcat:57mynxqhwjgxjgn7g7rzzlib34

Multi-Dimensional Dynamics of Human Electromagnetic Brain Activity

Tetsuo Kida, Emi Tanaka, Ryusuke Kakigi
2016 Frontiers in Human Neuroscience  
We briefly describe recent developments in source reconstruction algorithms essential for source-space connectivity and network analyses.  ...  The correct and effective use of these neuronal metrics provides a new insight into the multi-dimensional dynamics of the neural representations of various functions in the complex human brain.  ...  brain atlases (such as AAL, Talairach, and Harvard-Oxford) in order to compute source activity, connectivity, and graph metrics.  ... 
doi:10.3389/fnhum.2015.00713 pmid:26834608 pmcid:PMC4717327 fatcat:3cw4jjjx7fhhbnvhw747ricxxa

High-quality streamable free-viewpoint video

Alvaro Collet, Ming Chuang, Pat Sweeney, Don Gillett, Dennis Evseev, David Calabrese, Hugues Hoppe, Adam Kirk, Steve Sullivan
2015 ACM Transactions on Graphics  
coherent subsequences; and encoding of tracked textured meshes as an MPEG video stream.  ...  Our system records performances using a dense set of RGB and IR video cameras, generates dynamic textured surfaces, and compresses these to a streamable 3D video format.  ...  Ahmed et al. [2008b] generate temporally coherent meshes from per-frame shape-from-silhouette.  ... 
doi:10.1145/2766945 fatcat:qpglqukspzgsxjvb5yvl5ytbiq

Adding dynamics to the Human Connectome Project with MEG

L.J. Larson-Prior, R. Oostenveld, S. Della Penna, G. Michalareas, F. Prior, A. Babajani-Feremi, J.-M. Schoffelen, L. Marzetti, F. de Pasquale, F. Di Pompeo, J. Stout, M. Woolrich (+7 others)
2013 NeuroImage  
Magnetoencephalography (MEG) provides a temporally rich source of information on brain network dynamics and represents one source of functional connectivity data to be provided by the HCP.  ...  MEG source reconstructions may consist of up to~8000 nodes with electrophysiological connections between 64 million node pairs.  ...  Dynamic imaging of coherent source (DICS) reconstructs source-space data in the frequency domain (Gross et al., 2001; Van Veen et al., 1997) .  ... 
doi:10.1016/j.neuroimage.2013.05.056 pmid:23702419 pmcid:PMC3784249 fatcat:2tj34hturfelthuhbcrxuivpfy

Construction of a fetal spatio-temporal cortical surface atlas from in utero MRI: Application of spectral surface matching

R. Wright, A. Makropoulos, V. Kyriakopoulou, P.A. Patkee, L.M. Koch, M.A. Rutherford, J.V. Hajnal, D. Rueckert, P. Aljabar
2015 NeuroImage  
Topologically correct cortical surface models were extracted from reconstructed 3D MRI volumes.  ...  We construct consistent, unbiased average cortical surface templates, for each week of gestation, from age-matched groups of surfaces by applying kernel regression in the spectral domain.  ...  Acknowledgements The authors acknowledge financial support from the Department of Health via the National Institute for Health Research (NIHR) comprehensive Biomedical Research Centre award to Guy's &  ... 
doi:10.1016/j.neuroimage.2015.05.087 pmid:26070259 fatcat:c4amaj6szbdfzlgzzgpded3c6m

Ranking of tree-ring based hydroclimate reconstructions of the past millennium

Fredrik Charpentier Ljungqvist, Alma Piermattei, Andrea Seim, Paul J. Krusic, Ulf Büntgen, Minhui He, Alexander V. Kirdyanov, Jürg Luterbacher, Lea Schneider, Kristina Seftigen, David W. Stahle, Ricardo Villalba (+2 others)
2020 Quaternary Science Reviews  
Here, we evaluate 46 millennium-long tree-ring based hydroclimate reconstructions for their Data Homogeneity, Sample Replication, Growth Coherence, Chronology Development, and Climate Signal based on criteria  ...  The most challenging trade-off identified is between high continuous sample replications, as well as a well-mixed age class distribution over time, and a good internal growth coherence.  ...  There is no consistent geographical pattern associated with those reconstructions with the lowest Growth Coherence (class D).  ... 
doi:10.1016/j.quascirev.2019.106074 fatcat:xt4hpgxmdzgz5l4yiu75l42wim

Access Method [chapter]

2017 Encyclopedia of GIS  
No matter the point-level error covariance model E .hI Q Â/ adopted, surface reconstruction via KED is also consistent with the aggregate source data. In other words, the coherence property of Eq.  ...  Surface reconstruction via OK is also consistent with the aggregate source data, no matter the particular point-level covariogram model Y .hI Â/ adopted.  ... 
doi:10.1007/978-3-319-17885-1_100021 fatcat:ruj53dunmjhihjmn2svftoof2a

Multi-Atlas Segmentation of Biomedical Images: A Survey [article]

Juan Eugenio Iglesias, Mert Rory Sabuncu
2015 arXiv   pre-print
By manipulating and utilizing the entire dataset of "atlases" (training images that have been previously labeled, e.g., manually by an expert), rather than some model-based average representation, MAS  ...  Instead of focusing on reconstruction error, a different method (Wu et al., 2014) involves modifying the framework to reflect the consistency in the segmentations, such that atlases that propagate similar  ...  Simultaneous and consistent labeling of longitudinal dynamic developing cortical surfaces in infants. Medical image analysis 18, 1274-1289. Liao, S., Gao, Y., Lian, J., Shen, D., 2013.  ... 
arXiv:1412.3421v2 fatcat:6cgyslltmbfsxc72wimg6c7ofq

A Framework for Brain Atlases: Lessons from seizure Dynamics [article]

Andrew Y. Revell, Alexander B. Silva, T. Campbell Arnold, Joel M. Stein, Sandhitsu R. Das, Russell T. Shinohara, Danielle S. Bassett, Brian Litt, Kathryn A. Davis
2021 bioRxiv   pre-print
This framework aims to maximize the descriptive, explanatory, and predictive validity of these atlases.  ...  Broadly, our framework strives to augment neuroscience research utilizing the various atlases published over the last  ...  We thank Adam Gibson, Carolyn the brain are not consistent. Four separate atlases (Fig. 1a, 23 right) may define the superior temporal gyrus differently.  ... 
doi:10.1101/2021.06.11.448063 fatcat:5fhkstxgjfcvxfcke5hzlvytgu
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