TeachingSs13CAMP2Lecture

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

Computer Aided Medical Procedures II (CAMP II) - IN2022

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 first lecture will be held on Wed, April, 17th
  • For an overview of which subjects will show up in the lecture please refer to last year's lecture
  • Registration for the repeat exam originally scheduled for 02.10.2013 has been suspended, as the exam will be rescheduled due to popular demand

Attestation + Video Final Grades worth 40 points

Final Exam worth 60 points

  • Date: July 31; Time: 8:30am-10:00am; Location: 5101.EG.501 (2501, Rudolf-Mößbauer-Hörsaal)
  • 11 questions, one for each lecture

Dates

  • Lectures: Wednesdays 12:30 - 14:00 MI 00.08.038 from 17.04.2013 to 17.07.2013 weekly
  • Excercises: Thursdays 14:30 - 16:00 MI 03.13.008 from 18.04.2013 to 18.07.2013 weekly
  • Note that on 3 Thursday's a lecture is offered instead of an exercise. The location will change to MI 03.13.010

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 exercises.

The exercises 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

Course Schedule

Date Type Topic Conducted by Material/Literature Assignment
Wed, 17.04.2013 L CAMP2 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, 18.04.2013 E Intro to MATLAB Peter Maday, Mehmet Yigitsoy  MATLAB installation instructions   Excercise 1
Wed, 24.04.2013 L Filtering Abouzar Eslami  Filtering   Excercise 2
Thu, 25.04.2013 L Segmentation Abouzar Eslami  Segmentation1   Excercise 3
Thu, 02.05.2013 E Filtering/Segmentation (MATLAB) Abouzar Eslami    
Wed, 08.05.2013 L Intensity-based registration Mehmet Yigitsoy  IntensityBasedRegistration  
Wed, 15.05.2013 L Deformable registration Mehmet Yigitsoy  DeformableRegistration  
Thu, 16.05.2013 E Registration (MATLAB) Mehmet Yigitsoy     Excercise 4
Wed, 22.05.2013 L Variational Image Segmentation Maximilian Baust  VariationalImageSegmentation (corrected)  VariationalImageSegmentationExercise (solution)
Thu, 23.05.2013 E Variational Image Segmentation (MATLAB) Maximilian Baust     Excercise 5
Wed, 29.05.2013 L Effective algorithm validation Abouzar Eslami  Validation  
Wed, 05.06.2013 L Transformations + point based registration Pascal Fallavollita  Transformations + point based registration  
Thu, 06.06.2013 E Transformations + point based registration (MATLAB) Pascal Fallavollita     Exercise 6
Wed, 12.06.2013 L Guest lecture: Statistics Part 1 Prof. Ed Swan  Hypothesis Testing  
Thu, 13.06.2013 L Guest lecture: Statistics Part 2 Prof. Ed Swan    
Wed, 19.06.2013 L Histology Martin Groher  Histology  
Thu, 20.06.2013 E Histology (MATLAB) Martin Groher    Excercise 7
Wed, 26.06.2013 L Random Walks and other graph methods Diana Mateus  Random Walks Lecture  
Thu, 27.06.2013 E Random Walks (MATLAB) Diana Mateus    Excercise 8
Wed, 03.07.2013 L Medical AR & Visualization Pascal Fallavollita  Medical_AR  
Thu, 04.07.2013 E Validation (MATLAB) Abouzar Eslami     Excercise 9
Wed, 10.07.2013 L Medical Simulation Environments Patrick Wucherer , Philipp Stefan  Medical_Simulation_Environments  
Thu, 11.07.2013 L Video presentations Pascal Fallavollita    
Thu, 18.07.2013 E Attestation (14:30pm - 20:15pm) Exercise Lecturers    

Video Presentation Topics

Supervisor Video Topic Students
Diana Mateus PCA (Taken) Ralf Gutjahr
Nikoleta Mouriki
Siri Vea
Gabriel Castrillon
Juan Osorio
ICP (Taken) Sabahattin Giritli
Kevin Merckx
Ole Tommy Vorren
Marat Faizov
Roberto Camacho Barranco
Mehmet Yigitsoy Mutual Information (Taken) Jun Shen
Yixiang Gong
Zhengyu Shan
Burcu Altinkaya
Andrew Kravtsiv
Similarity Metrics in Registration (Taken) Olga Khrutska
Lisa Bast
Patrick Follmann
Maximilian Baust Basic Level Sets  
Pascal Fallavollita Tracking Solutions in Medicine (Taken) Stavroula Timioteraki
Cemre Senesen
Stefan Winzeck
Eduardo Coello
Faisal Ibne Mozher
Optical vs. Video See Through HMD (Taken) Priya Sarvachakan
Sai Gokul Hariharan
Nitin Deshpande
Patrick Wucherer & Philipp Stefan Ray Casting (Taken) Jihye Jang
Laura Flores
Tushar Upadhyay
Tao Ye
Nicola Leucht
Abouzar Eslami TRE/FRE Error Evaluations (Taken) Markus Muller
Yunchang Liang
Liubov Merina
False Positive/False Negative/ROC  
Amin Katouzian Gausssian Filtering (Taken) Mark Muth
Volodymyr Chernii
Katerina Mikaeva
Alex Derntl
Ivan Olefir
Loic Peter Random Forests (Taken) Amandeep Kaur
Stephanie Wartenburg
Julian Völkel
Maike Forberg
Tobias Lasser SVD and Applications (Taken) Xiao Huang
Xiao Xue
Piotr Wojewnik
Judith Zimmermann
Rotations in Medical Imaging  
Christoph Hennersperger Basic US Imaging (Taken) Melanie Bernhardt
Dominik Hagl
Christian Buchmayr
Franziskus Neuhoff
Alexander Barthel

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, Peter Maday, Mehmet Yigitsoy
Type: Lecture
Information: 2+2 SWS, 5 ECTS Credits (Module IN2022)
Term: 2013SoSe
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 r1.78 - 02 Sep 2013 - 12:28 - PeterMaday

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