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Anisotropic Diffusion in ITK [article]

Jean-Marie Mirebeau, Laurent Risser
2015 arXiv   pre-print
In this paper, we present an anisotropic non-linear diffusion technique we implemented in ITK.  ...  Anisotropic Diffusion is understood here in the sense of Weickert, meaning that diffusion tensors are anisotropic and reflect the local orientation of image features.  ...  In this paper, we present an anisotropic non-linear diffusion technique we implemented in ITK.  ... 
arXiv:1503.00992v1 fatcat:l3n2gjylonhezjgo22pvxwt5rq

Segmentation of Brain MR Images with ITK Toolkit

P. Narendran, Dr V Thiagarasu
2019 International Journal of Computer Applications Technology and Research  
In this paper brain MRI segmentation is demonstrated for delineation of a tumor, ventricles and other anatomical structures using Insight Segmentation and Registration Toolkit (ITK) routines as the foundation  ...  Segmentation of medical images is an important step in forming realistic tissue models.  ...  When faced with noisy images, it is usually convenient to pre-process the image by using edge-preserving smoothing filters such as Curvature Anisotropic Diffusion Filter, Gradient Anisotropic Diffusion  ... 
doi:10.7753/ijcatr0805.1005 fatcat:vpesqmtvjzfx7basvnbfsdcbvm

MATLAB-ITK interface for medical image filtering, segmentation, and registration

Vincent Chu, Ghassan Hamarneh, Joseph M. Reinhardt, Josien P. W. Pluim
2006 Medical Imaging 2006: Image Processing  
To facilitate high level analysis of medical image data in research and clinical environments, a wrapper for the ITK toolkit is developed to allow ITK algorithms to be called in MATLAB.  ...  ITK is a powerful open-source toolkit implementing state-of-the-art algorithms in medical image processing and analysis.  ...  Figures 2a-c present the result of applying anisotropic diffusion (F CA) filtering followed by confidence connected segmentation (SCC) to a sample image by issuing the following commands in MATLAB: >>  ... 
doi:10.1117/12.652628 dblp:conf/miip/ChuH06 fatcat:re6rbqymtrhk5felwenm2knc34

Deformation analysis of Hoffa's fat pad from CT images of knee flexion and extension

Ghassan Hamarneh, Vincent Chu, Marcelo Bordalo-Rodrigues, Mark Schweitzer, Amir A. Amini, Armando Manduca
2005 Medical Imaging 2005: Physiology, Function, and Structure from Medical Images  
Recent advances in medicine conjecture that certain body fat may have mechanical function in addition to its classical role of energy storage.  ...  Towards this goal, 3D CT images of real knees, as well as a skeletal knee model with fat simulating Hoffa's pad, were acquired in both extension and flexion.  ...  This work benefited from the use of the Insight Segmentation and Registration Toolkit (ITK), an open source software developed as an initiative of the U.S.  ... 
doi:10.1117/12.594803 fatcat:qyokbyx3nnfw3jkqyszfag3u6u

Comparative Study of Relevant Methods for MRI/X Brain Image Registration [chapter]

Marwa Abderrahim, Abir Baâzaoui, Walid Barhoumi
2020 Lecture Notes in Computer Science  
Several methods of brain image registration have been proposed in order to overcome the requirement of clinicians.  ...  In this paper, we assess the performance of a hybrid method for brain image registration against the most used standard registration tools.  ...  In fact, the use of an anisotropic diffusion filtering ensures the maximization of PET image homogeneity and the minimization of the diffusion at the edges.  ... 
doi:10.1007/978-3-030-51517-1_30 fatcat:yna3jmmavvgt7apvcyy4yrbxqq

Integrating segmentation methods from the Insight Toolkit into a visualization application

Ken Martin, Luis Ibáñez, Lisa Avila, Sébastien Barré, Jon H. Kaspersen
2005 Medical Image Analysis  
The process for developing ITK plugins for VolView according to the publicly available API is described in detail, and an application of ITK VolView plugins to the segmentation of Abdominal Aortic Aneurysms  ...  This paper describes the integration of image processing functionalities provided by the Insight Tookit (ITK) into VolView, a visualization application for high performance volume rendering.  ...  Acknowledgements The data used for the segmentations presented in this paper were provided by SIN-TEF, Unimed. The integration of ITK plugins into Volview was funded by the U.S.  ... 
doi:10.1016/j.media.2005.04.009 pmid:16185910 fatcat:5tihd77w4zg3ve2qqzczhgkkey

Liver segmentation for hepatic lesions detection and characterisation

C. Platero, J.M. Poncela, P. Gonzalez, M.C. Tobar, J. Sanguino, G. Asensio, E. Santos
2008 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
ITK was used to develop the algorithms and clinical practice was conducted with the necessary modifications in ITK-Snap.  ...  SEGMENTATION ALGORITHM diffusion in the tangential component to the level curve and inverse diffusion in the normal direction.  ... 
doi:10.1109/isbi.2008.4540920 dblp:conf/isbi/PlateroPGTSAS08 fatcat:w52bkohynra45okuj2a2g3pnnq

Quantitative CT for volumetric analysis of medical images: initial results for liver tumors

Alexander S. Behnaz, James Snider, Eneh Chibuzor, Giuseppe Esposito, Emmanuel Wilson, Ziv Yaniv, Emil Cohen, Kevin Cleary, Benoit M. Dawant, David R. Haynor
2010 Medical Imaging 2010: Image Processing  
This software package features a fixed parameter adaptive filter from the ITK toolkit and a tumor segmentation algorithm to reduce inter-user variability and to facilitate rapid volume measurements.  ...  These steps are carried out using the MATLAB GUI shown in Figure 3 on the next page. Filtering Schema The Curvature Anisotropic Diffusion Filter was implemented using ITK calls via MATITK [4] .  ...  Program Flow The tumor was segmented as illustrated in Figure 1: 1) Filter the images with an adaptive filtering scheme, namely the "Curvature Anisotropic Diffusion Filter" [3] . 2) The user places  ... 
doi:10.1117/12.844344 dblp:conf/miip/BehnazSCEWYCC10 fatcat:ubsp5yhr3fhjhmvmkmgheo7nam

Simulations of depleted CMOS sensors for high-radiation environments

J. Liu, M. Barbero, S. Bhat, P. Breugnon, I. Caicedo, Z. Chen, Y. Degerli, S. Godiot-Basolo, F. Guilloux, T. Hemperek, T. Hirono, F. Hügging (+10 others)
2017 Journal of Instrumentation  
in details.  ...  In this paper, the guard-ring simulation for a HV/HR CMOS sensor developed for the ATLAS ITk and the charge collection efficiency simulation for a CMOS sensor explored for the CEPC tracker will be discussed  ...  They support various advanced process options, such as isotropic or anisotropic deposition and etching, trench formation, diffusion and implantation.  ... 
doi:10.1088/1748-0221/12/11/c11013 fatcat:ibc53bzv2rbezcxaouolhtojui

The architecture and performance of CAVASS

George Grevera, Jayaram Udupa, Dewey Odhner, Ying Zhuge, Andre Souza, Michael I. Miga, Kevin R. Cleary
2008 Medical Imaging 2008: Visualization, Image-guided Procedures, and Modeling  
We describe the architecture of CAVASS, the parallelization strategy, and present the results of comparing the implementation of CAVASS algorithms with similar algorithms in ITK and VTK for a host of operations  ...  13111.00 par affine MI registration NA 25.10 [5] NA 1018.60 [5] NA 3662.20 [5] anisotropic diffusion 41.67 13.49 1553.11 526.22 fuzzy connectedness seg 108.4 49.5 ? 843.7 ? ?  ...  In all likelihood, the version of ITK obtained in this manner would be different from the ITK version used for CAVASS testing.  ... 
doi:10.1117/12.773108 dblp:conf/miigp/GreveraUOZS08 fatcat:l34xlaznlzcnpoll77wtjza7jy

Deformable image registration of sliding organs using anisotropic diffusive regularization

Danielle F. Pace, Andinet Enquobahrie, Hua Yang, Stephen R. Aylward, Marc Niethammer
2011 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
In this paper, we present a deformation field regularization term that is based on anisotropic diffusion and accommodates the deformation field discontinuities that are expected when considering sliding  ...  Compared to an established diffusive regularization approach, the anisotropic diffusive regularization gave deformation fields that represented more plausible image correspondences, while giving rise to  ...  A common application of anisotropic diffusion is anisotropic filtering, in which D = I and images can be smoothed only in certain directions in order to smooth while maintaining edges.  ... 
doi:10.1109/isbi.2011.5872434 pmid:21785755 pmcid:PMC3141338 dblp:conf/isbi/PaceEYAN11 fatcat:fjn5ecamwjcl5aeun47axqexla

Image relaxation: restoration and feature extraction

W. Snyder, Youn-Sik Han, G. Bilbro, R. Whitaker, S. Pizer
1995 IEEE Transactions on Pattern Analysis and Machine Intelligence  
/filters/ §Mirebeau J., Fehrenbach J., Risser L., Tobji S., "Anisotropic Diffusion in ITK", the Insight Journal §Images copied per Creative Commons license § http://www.insight-journal.org/browse/publication  ...  Anisotropic diffusion §With repetition, produces a nearly piecewise uniform result § Like MFA and GNC formulations § Equivalent to MFA w/o a noise term §Edge-oriented VCD: § VCD + diffuse tangential to  ... 
doi:10.1109/34.387509 fatcat:bxdolr3j3nhspaqjfotttt74hi

ITK: enabling reproducible research and open science

Matthew McCormick, Xiaoxiao Liu, Julien Jomier, Charles Marion, Luis Ibanez
2014 Frontiers in Neuroinformatics  
Ana Nelson for her training in the Dexy (http://www. dexy.it/) reproducible research documentation tool for this article.  ...  ACKNOWLEDGMENTS We would like to thank the Insight Toolkit community, which we are honored to participant in. We would like to thank Dr.  ...  To address these challenges, computations in ITK are performed in physical space, which accounts for anisotropic spacing, etc., and are written in such a way that they apply to N-dimensional datasets.  ... 
doi:10.3389/fninf.2014.00013 pmid:24600387 pmcid:PMC3929840 fatcat:j3igmstkr5gz7ama67sv4wduum

Introducing CAVASS: a Computer-Assisted Visualization and Analysis Software System

George Grevera, Jayaram Udupa, Dewey Odhner, Ying Zhuge, Andre Souza, Tad Iwanaga, Shipra Mishra, Steven C. Horii, Katherine P. Andriole
2007 Medical Imaging 2007: PACS and Imaging Informatics  
And finally, toolkits such as ITK and VTK have been developed and are freely available.  ...  Our most recent system, 3DVIEWNIX, was first released in 1993.  ...  RESULTS Many algorithms have already been implemented and tested in CAVASS. For example, interpolation of anisotropic data to isotropic data is a common medical imaging task.  ... 
doi:10.1117/12.709725 fatcat:u3gmsro4o5cunbrcwoydgg22wy

Enhancement of micro-channels within the human mastoid bone based on local structure tensor analysis

Olivier Cros, Anders Eklund, Michael Gaihede, Hans Knutsson
2016 2016 Sixth International Conference on Image Processing Theory, Tools and Applications (IPTA)  
Comparison with an anisotropic diffusion PDE based scheme was also performed.  ...  Abstract-Numerous micro-channels have recently been discovered in the human temporal bone by x-ray micro-CTscanning.  ...  An ITK version of the anisotropic diffusion scheme exists but the Matlab version was used for easier comparison purposes.  ... 
doi:10.1109/ipta.2016.7821019 dblp:conf/ipta/CrosEGK16 fatcat:pnlqsz4m5fg3la4ldyjbyroakq
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