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Alexandra
Lauric |
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In June 2010, I have successfully defended
my thesis and completed all the requirements for a PhD degree in computer
science. The title of my thesis is “Automated Detection and Classification of
Intracranial Aneurysms based on 3D Shape Analysis”. My main interests are Computer Vision
and Computational Geometry and my research area is medical imaging. My
advisor is Prof. Eric
Miller. We work in collaboration with Dr. Adel Malek from Research
links: Computer Graphics research group web page. Computational Geometry at Tufts Computational Geometry research group web page. In 1989, the National Library of
Medicine (NLM) started The Visible Human Project with the goal of creating a
digital atlas of the human body. In 1991, full CT and MRI data sets were
collected of a fresh cadaver (39-year old convicted murderer Joseph Paul
Jernigan). Physical sections of the cadaver were also collected and
photographed at high resolution. In 1995, CT, MRI and RGB photos were
collected of the fresh cadaver of a 59-year-old The
National Alliance for Medical Imaging Computing (NA-MIC) A multi-institutional,
interdisciplinary team of computer scientists, software engineers, and
medical investigators who develop computational tools for the analysis and
visualization of medical image data. The purpose of the center is to provide
the infrastructure and environment for the development of computational
algorithms and open source technologies, and then oversee the training and
dissemination of these tools to the medical research community. Bill Lorensen: Marching Through
the Visible Man Experiments done at GE research lab with the fresh CT data set. A guide on using VTK to extract skin, bone, muscle and bowels from the Visible Man data set. Animations, hundreds of graphics and
thousands of descriptive links to study the anatomy of the human body. Ideal reference site to find out more about
the medical description used by doctors. Open
Source tools to process, analyze and visualize medical images: ITK -
Insight Segmentation and Registration Toolkit A powerful open-source software toolkit for performing registration and segmentation. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. Typically the sampled representation is an image acquired from such medical instrumentation as CT or MRI scanners. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with a MRI scan in order to combine the information contained in both. See my guide on how to install ITK and VTK. An open source, freely available software system for 3D computer graphics, image processing, and visualization. VTK supports a wide variety of visualization algorithms including scalar, vector, tensor, texture, and volumetric methods; and advanced modeling techniques such as implicit modeling, polygon reduction, mesh smoothing, cutting, contouring, and Delaunay triangulation. VTK consists of a C++ class library, and several interpreted interface layers including Tcl/Tk, Java, and Python. See my guide on how to install ITK and VTK. An intuitive and interactive system for volume visualization. VolView is a commercial product, but a restricted version is available for free. I use it to visualize the results of my ITK scripts. An open-source, multi-platform, extensible application designed for visualizing large data sets. I use it to visualize the 3D models I create with VTK. A free DICOM viewer and converter
dedicated to people working with DICOM files. DiacomWorks is used to view
volumes consisting of a series of 2D images. DICOM is a file format introduced by
the The 3D Slicer is freely available, open-source software for visualization, registration, segmentation, and quantification of medical data. Slicer integrates several facets of image-guided medicine into a single environment. It provides capabilities for automatic registration (aligning data sets), semi-automatic segmentation (extracting structures such as vessels and tumors from the data), generation of 3D surface models (for viewing the segmented structures), 3D visualization, and quantitative analysis (measuring distances, angles, surface areas, and volumes) of various medical scans. Books:
·
Insight
into Images: Principles and Practice for Segmentation, Registration, and
Image Analysis
· The ITK Software Guide: The Insight Segmentation and Registration Toolkit (version 1.4) ·
The
Visualization Toolkit, Third Edition Other
links: A step by step guide on how to
download and install ITK and VTK on Windows machines. Learn from my mistakes. List of the classes
I have taken so far. |