The course syllabus is a general plan for the course; deviations may be necessary and will be announced to the class by the
instructor.
| Lecture block | Topic |
| 1 | Introduction to Biomedical Imaging
History and development of Biomedical Imaging |
| 2 | Digital Images:
Properties and Processing |
| 3 | X-rays: Physics and instrumentation
X-ray tubes, X-ray attenuation in tissue
Film, image intensifiers, digital detectors |
| 3 | The Fourier transform |
| 4 | Computed Tomography: Principles
Reconstruction algorithms
Instruments and aplications |
| 5 | MRI: Physical foundations
Precession and spin echo
Gradient encoding
image reconstruction |
| 6 | Ultrasound Imaging |
| 7 | Beyond image formation:
Computerized Image processing |
| 8 | Statistical Image Description
Image Representation |
| 9 | Image Enhancement and Filtering
in the Spatial and Frequency Domain |
| 10 | Intensity-Based Segmentation |
| 11 | Morphological operators |
| 12 | Image Measurements and Quantification |
| 13 | Classification and
Decision Mechanisms |
| 14 | Outlook and Trends in Medical Imaging |
Medical Imaging Technology by M.A. Haidekker, SpringerBriefs in Physics (2013)
Disclaimer: The author does not get royalty payments from the sale of this book
In addition, you need to obtain Chapters 2 and 3 of the book
Advanced Biomedical Image Analysis (M. Haidekker),
John Wiley & Sons, 2011
Follow this link to access
the chapters on-line through our library
Recommended further reading:
Geoff Dougerty: "Digital Image Processing for Medical Applications",
Cambridge 2009, ISBN 978-0-521-86085-7
Excellent book that combines both the physics of imaging modalities
and the computer processing steps needed for image formation
and for further image processing.
This book is a great complement for the class notes and strongly recommended.
Essential Physics of Medical Imaging
by G. Bushberg et al.
Lippincott Williams & Wilkins
This textbook covers all aspects of medical image acquisition. Presents an
understanding of the theory and applications of the science including basic
concepts, X-ray imaging, ultrasound, MRI, nuclear medicine, radiation
protection, radiation dosimetry, and radiation biology. Abundant illustrations.
This book is directed at students with a medical background.
The Image Processing Handbook
by John C. Russ
CRC Press
A very comprehensive and extensive book covering all aspects of image
processing in Engineering and Science. Unfortunately, this comes at
a relatively high price.
Digital Image Processing Algorithms and Applications
by Ioannis Pitas
Wiley-Interscience
This book is a good reference for those of you who are
interested in actually programming those algorithms. It provides
lots of C source code. However, algorithms are limited to entry-level image processing
methods.
Magnetic Resonance Imaging: Physical Principles and Sequence Design
by E. Mark Haacke, Robert W. Brown, Michael R. Thompson, Ramesh Venkatesan
John Wiley & Sons
For those of you who really want to get into MRI, this book provides
even more in-depth MRI knowledge, covering the special area of sequence design
for specific medical and research applications
|
COMPUTER LAB AND SOFTWARE
|
Some homeworks will require the use of image processing software. If you have specific preferences,
you may choose your own favorite software. In general, I recommend
ImageJ. It is a widely used cross-platform software, and it is
Free software so you can install and run it
on your own computers.
For in-class demos, I usually use my own Crystal Image, because it
has several features that I need for live demonstrations. This software is also Free (download from the above link),
but it requires Linux.
The following needs to go the the first IJ homework:
ImageJ on the Mac: Permission to run third-party software needs to explicitly granted.
The following point-by-point instructions are courtesy of Juhi Mancha (thanks!!):
- Go to System Preferences → Security and Privacy
- Click on the padlock icon to unlock the panel. You need to enter your password. Then select 'unlock'.
- Find the radiobuttons titled 'Allow apps downloaded from:', and choose 'anywhere'.
- Click on the padlock icon again to apply the changes. This has now enabled installation of ImageJ.
- Use the downloaded ImageJ binary to install the software.
- Restore your previous security settings in the Security and Privacy preferences.
The grade will be based roughly in equal parts on the homeworks, the midterm
exam, and the final exam.
You will receive score points based on the fill-the-bucket principle,
i.e. for each homework assignment and for each test, you accrue score points.
Your final grade will be determined from the score you achieved relative
to the maximum score achievable. Typically, you receive a maximum of 20-30
points per homework (more for the large homeworks), and 100 points per test,
resulting in a maximum score of around 300 points.
We use a fixed grading system. There will be no adjustment
based on the overall class performance.
To earn a passing grade, you will have to achieve an overall score of at least 45%.
The following table shows the percentage of your score you need to reach
for a specific grade:
| Grade | Minimum percentage |
Grade | Minimum percentage |
Grade | Minimum percentage |
| A | 95% |
A- | 90% |
| |
| B+ | 85% |
B | 80% |
B- | 75% |
| C+ | 70% |
C | 65% |
C- | 60% |
| D+ | 50% |
D | 45% |
| |
