TeachingSs11CAMP2Lecture

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

Computer Aided Medical Procedures II (CAMP II) - IN2022

  • To register for this lecture, please fill in this as soon as possible. (Attendance at the preliminary meeting is NOT necessary for registration!)

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 Mehmet Yigitsoy.

Preliminary Meeting

  • There will be a preliminary meeting on 15.03.2011 (Tuesday) at 13:00 in MI 03.13.010

Dates

  • Wednesdays 12:30 - 14:00 MI 03.13.010 from 4.05.2011 to 13.07.2011 weekly
  • Thursdays 14:30 - 16:00 MI 03.13.008 from 5.05.2011 to 21.07.2011 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.

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. You are not required to hand-in the exercise every week. However, you are required to have all the exercises implemented, as indicated on the exercise sheets, for the attestation day to get the bonus 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
Wed, May 4, 2011 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, May 5, 2011 E Introduction to MATLAB Mehmet Yigitsoy, Athanasios Karamalis, Pascal Fallavollita    Exercise 1
Wed, May 11, 2011 L Basic and Advanced Filtering Nicolas Brieu  Filtering  
Thu, May 12, 2011 E Basic and Advanced Filtering Nicolas Brieu    Exercise 2
Wed, May 18, 2011 L Basic Segmentation Methods Nicolas Brieu  Segmentation  
Thu, May 19, 2011 E Basic Segmentation Methods Nicolas Brieu    Exercise 3
Wed, May 25, 2011 L Variational Methods for Image Segmentation Maximilian Baust  Slides
 Derivations
 
Thu, May 26, 2011 E Variational Methods for Image Segmentation Maximilian Baust    Exercise 4
Wed, Jun 1, 2011 L Classification Methods I Olivier Pauly, Diana Mateus  MLMedI  
Thu, Jun 2, 2011 - No class due to Ascencion Day      
Wed, Jun 8, 2011 L Classification Methods II Olivier Pauly, Diana Mateus  MLMedII  
Thu, Jun 9, 2011 E Classification Methods Olivier Pauly, Diana Mateus    PracticingML
 Datasets
 Exercise 5
 MLMedMatlabCode
Wed, Jun 15, 2011 T Attestation Nicolas Brieu, Maximilian Baust    
Thu, Jun 16, 2011 L Classification Methods III Olivier Pauly, Diana Mateus  MLMedIII.pdf  
Wed, Jun 22, 2011 L+E Transformation, Coordinate Systems and Point Based Registration Pascal Fallavollita, Lejing Wang  Transformation.pdf  Exercise 6
Thu, Jun 23, 2011 - No class due to Corpus Christi      
Wed, Jun 29, 2011 L Intensity Based Registration Mehmet Yigitsoy  I.B. Registration  
Thu, Jun 30, 2011 E Intensity Based Registration Mehmet Yigitsoy    Exercise 7
Wed, Jul 6, 2011 L Reconstruction Methods Jakob Vogel  Reconstruction Methods  
Thu, Jul 7, 2011 E Reconstruction Methods Jakob Vogel    Exercise 8
Wed, Jul 13, 2011 L Deformable Registration Loren Schwarz  Deformable Registration  
Thu, Jul 14, 2011 E Deformable Registration Loren Schwarz    Exercise 9
Wed, Jul 20, 2011 L Medical Visualization and Augmented Reality André Aichert, Matthias Wieczorek  Visualization And Medical AR

 DVR slides
 
Thu, Jul 21, 2011 T Attestation Olivier Pauly, Diana Mateus, Jakob Vogel, Loren Schwarz, Mehmet Yigitsoy, Pascal Fallavollita, Lejing Wang    Attestation Points For questions email karamali@in.tum.de
Thu, Aug 4, 2011 T Final Exam - Room:MW 1350 Time:9:00-10:30 Mehmet Yigitsoy, Athanasios Karamalis, Pascal Fallavollita    
Wed, Oct 12, 2011 T Repeat Exam - Room:FMI 00.08.059 Time:10:30-12:00 Mehmet Yigitsoy, Athanasios Karamalis, Pascal Fallavollita    

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: Pascal Fallavollita, Athanasios Karamalis, Mehmet Yigitsoy
Type: Lecture
Information: 2+2 SWS, 5 ECTS, Praktische Informatik, Vertiefungsfach
Term: 2011SoSe
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.


Edit | Attach | Refresh | Diffs | More | Revision r1.65 - 26 Aug 2011 - 11:15 - MehmetYigitsoy

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