TeachingSs09CAMP2Lecture

Chair for Computer Aided Medical Procedures & Augmented Reality
Lehrstuhl für Informatikanwendungen in der Medizin & Augmented Reality

Computer Aided Medical Procedures II (CAMP II) - IN2022

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Lecture by Prof. Dr. Nassir Navab
Type: Lecture Module IN2022
Programs: Informatics (Bachelor, Master), Informatics (Diploma: Praktische Informatik, Vertiefungsfach), Information Systems (Bachelor), Computational Science and Engineering (Master), TUM-BWL (Technikfach)
SWS: 2+2
ECTS: 5 Credits
Course Language: English

 

Further Information:

  • The classes and exam are in English.
  • This lecture is the successor of "Computer Aided Medical Procedures" (which is recommended but not obligatory).
  • In case of organizational questions, please contact Martin Groher.
  • Second Attestation takes place on Tuesday, July 7 and on Wednesday, July 8, starting at 16:00. Please download the schedule and pick a time slot you like (the file will be updated during the day). Then send an e-mail with your choice to Loren Schwarz until tonight, July 6.
  • ALERT! Attention: CLOSED BOOK (NO MATERIAL WILL BE ALLOWED DURING THE EXAM)!!! ALERT!

Dates

  • Tuesdays 13:00 - 14:30 MI 03.13.010 from 21.04.2009 to 21.07.2009 weekly
  • Thursdays 14:30 - 16:00 MI 03.13.008 from 23.04.2009 to 23.07.2009 weekly Exercise

Abstract

This lecture teaches students to transfer their knowledge from the field of medical imaging and computer assisted interventions to practical algorithms. During the classes, the students get exposed to particular problems from segmentation, registration, navigation, tracking, and medical augmented reality and are then guided when implementing those algorithms themselves using MATLAB during the excercises.

The excercises take place in a lab room with MATLAB workstations.

For a more detailed overview, see last year's lecture.

Prerequisites

  • Basic knowledge in image computing (not necessarily acquired through the CAMP I lecture)
  • Interest in algorithmic/implementation aspects
  • Ability to work in small teams

  • Specific knowledge in MATLAB is not required but beneficial. However, you should be somehow skilled in programming.

Benefits

  • Deep insight into medical image computing
  • Ability to implement solutions for computer aided medical procedures

Exam

  • Attestation days: Each student has to present and explain the exercises he has implemented. For each attestation you can earn 20 points. Note that all programs have to work in order to get all points.
  • In the exam itself you can earn up to 80 points.
  • In total you can earn up to 120 points. In order to pass the exam (mask >= 4.0) you will need at least 50 points. For mark 1.0 you need at least 95 points.

Course Schedule

Date Type Topic Conducted by Material/Literature Assignment
Tue, Apr 21, 2009 L Introduction and Overview Prof. Nassir Navab   Become familiar with MATLAB:
 MATLAB Workshop,
 a friendly introduction (Jörn Behrens and Armin Iske),
 Numerical Computing with MATLAB, Introduction to MATLAB (Cleve Moler)
Thu, Apr 23, 2009 E Introduction to MATLAB Olivier Pauly, Max Baust    
Tue, Apr 28, 2009 L Invited Talk: From image-guided to model-guided therapy Prof. Lemke, PhD, University of Southern California, LA, USA:    
Thu, Apr 30, 2009 E Basic and Advanced Filtering Max Baust    
Tue, May 5, 2009 L Wavelets Olivier Pauly, Max Baust slides  
Thu, May 7, 2009 E Wavelets Olivier Pauly, Max Baust  Wavelet Tutorial by Robi Polikar,  Wavelet Tutorial by Wolfram Research  
Tue, May 12, 2009 L Segmentation Nicolas Brieu CAMPII_Segmentation_2009_05.zip  
Thu, May 14, 2009 E Segmentation Nicolas Brieu    
Tue, May 19, 2009 L Transformation, Calibration Tassilo Klein,Hauke Heibel Coordinates, Tracking, Calibration  
Thu, May 21, 2009   no class due to Ascencion Day      
Tue, May 26, 2009 L Point-Based Registration, Optimization Martin Groher Point-Based Registration and Optimization  
Thu, May 28, 2009 E Transformation, Calibration Tassilo Klein,Hauke Heibel    
Tue, Jun 02, 2009   Pentecoast      
Thu, Jun 04, 2009 E Point-Based Registration, Optimization Martin Groher,Hauke Heibel    
Mon, Jun 08, 2009, 5.00pm T attestation Olivier Pauly, Max Baust, Nicolas Brieu, Tassilo Klein, Hauke Heibel, Martin Groher    
Thu, Jun 11, 2009   no class due to Feast of Corpus Christi      
Tue, Jun 16, 2009 L Intensity-Based Registration Christian Wachinger Intensity-Based Registration  
Thu, Jun 18, 2009 E Intensity-Based Registration Christian Wachinger    
Tue, Jun 23, 2009 L Deformable Registration Loren Schwarz Deformable Registration  
Thu, Jun 25, 2009 E Deformable registration Loren Schwarz    
Tue, Jun 30, 2009 L US-CT Registration Athanasios Karamalis US-CT Registration  
Thu, Jul 02, 2009 E US-CT Registration Athanasios Karamalis    
Tue, Jul 07, 2009 T attestation Christian Wachinger, Loren Schwarz, Athanasios Karamalis    
Thu, Jul 09, 2009 L Hands on Volume Rendering André Aichert Advanced Visualization of 3D Data
Pretty slides on theory and HiWi Teaser
 
Tue, Jul 14, 2009 L Live Demo of a Medical AR System at NarvisLab Christoph Bichlmeier, Lejing Wang    
Thu, Jul 16, 2009 L Summary and Questions      
Tue, Jul 21, 2009   Exam in room MI HS 3 at 2.30 - 4.00pm   ALERT! Attention: CLOSED BOOK (NO MATERIAL WILL BE ALLOWED DURING THE EXAM)!!! ALERT!  

Literature

Primary Literature

  • Image Processing / (Filtering, Morpholgical Operations, and Basic Segmentation Methods):
  • Segmentation:
  • Advanced Segmentation:
    • Leo Grady, Yiyong Sun, James Williams. Three interactive graph-based segmentation methods applied to cardiovascular imaging. In Nikos Paragios, Yunmei Chen, Olivier Faugeras, editors. Handbook of mathematical models in computer vision. Springer, 2006.
    • Yuri Boykov and Marie-Pierre Jolly. Interactive organ segmentation using graph cuts. In Scott L. Delp, Anthony M. DiGioia, and Branislav Jaramaz, editors, MICCAI, volume 1935 of Lecture Notes in Computer Science, pages 276--286. Springer, 2000.
    • Y. Boykov and O. Veksler. Graph cuts in vision and graphis: theories and applications. In Nikos Paragios, Yunmei Chen, Olivier Faugeras, editors. Handbook of mathematical models in computer vision. Springer, 2006.
    • Yuri Boykov, Gareth Funka-Lea. Graph Cuts and Efficient N-D Image Segmentation. In International Journal of Computer Vision (IJCV), vol. 70, no. 2, pp. 109-131, 2006.
    • Leo Grady and Gareth Funka-Lea. Multi-label image segmentation for medical applications based on graph-theoretic electrical potentials. In Milan Sonka, Ioannis A. Kakadiaris, and Jan Kybic, editors, Computer Vision and Mathematical Methods in Medical and Biomedical Image Analysis, ECCV 2004 Workshops CVAMIA and MMBIA, number LNCS3117 in Lecture Notes in Computer Science, pages 230--245, Prague, Czech Republic, May 2004. Springer.
    • Leo Grady and Eric Schwartz. Anisotropic interpolation on graphs: The combinatorial Dirichlet problem. Technical Report CAS/CNS-TR-03-014, Department of Cognitive and Neural Systems, Boston University, Boston, MA, July 2003.
    • Web Page of Leo Grady a.k.a. everything you gotta know about random walker...
  • Registration:
    • [Hajnal2001] J. V. Hajnal, D. L. G. Hill, and D. J. Hawkes: Medical Image Registration. CRC Press, Biomedical Engineering Series, 2001
  • Deformable Registration:
    • [Modersitzki2004] Jan Modersitzki. Numerical methods for image registration. Oxford University Press, 2004.
  • Visualization:
    • Christof Rezk-Salama, Klaus Engel, Markus Hadwiger, Joe M. Kniss and Daniel Weiskopf: Real Time Volume Graphics, Transatlantic Publishers, 2006

Secondary Literature


TeachingForm
Title: Computer Aided Medical Procedures II
Professor: Prof. Dr. Nassir Navab
Tutors: Maximilian Baust, Nicolas Brieu, Stefanie Demirci, Martin Groher, Hauke Heibel, Tassilo Klein, Oliver Kutter, Olivier Pauly, Loren Schwarz, Christian Wachinger, Lejing Wang
Type: Lecture
Information: 2+2 SWS, 5 ECTS, Praktische Informatik, Vertiefungsfach
Term: 2009SoSe
Abstract: Computer science is playing an important, increasing role in medical practices. Medical imaging companies are no more asked by physicians to only produce images of anatomy. Instead, they are asked to design software and hardware systems to provide complex computer-aided solutions for diagnosis, intervention and therapy. There are more and more opportunities for computer science graduates to contribute to the development and deployment of medical solutions. Within the operating rooms, there is an increasing need for the integration and visualization of heterogeneous data acquired by numerous sensors. This course on computer aided medical procedures exposes the students to the challenges of building the operating rooms of the future. The main focus of the course is in imaging technologies especially intra-operative imaging as well as the visualization of this data. Techniques like segmentation and registration are explained in various classes.


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