Beng445a/Eeng445a/Enas912a

Biomedical Image Processing and Analysis

Fall 2007

original blurred low sampling edges

TA page: For information from your TA.
Resources page: For information on course resources for computer (matlab) assignments.
Engineering Information Technology: For information on computing resources in Engineering (circus, garage).
Yale Classes server (use v2): For course information, under "Resources": slides, handouts, problem sets, etc.


Course Number BENG/EENG 445, ENAS 912
Course Title Biomedical Image Processing and Analysis
Instructors
James Duncan (james dot duncan at yale dot edu)
Lawrence Staib (lawrence dot staib at yale dot edu)
Teaching Assistant
Yun Zhu (yun dot zhu at yale dot edu)
Acting TA: Chao Lu (chao dot lu at yale dot edu)
TA office hours: Friday 12:00pm-2:00pm
BML (Brady) 322, 310 Cedar St. in the medical school.
Other times by appointment.
Schedule MW 4:00-5:15 at Becton 102 (was 408A)

Overview

This course is an introduction to Biomedical Image Processing and Analysis covering image processing basics and techniques for image enhancement, compression, segmentation, registration and motion analysis. Students will learn the fundamentals behind image processing and analysis methods and algorithms with an emphasis on biomedical applications. This course is open to undergraduate and graduate students. We assume students have an understanding of linear systems (Eeng 310 or equivalent) and calculus up to differential equations. In addition, it is also helpful to have a familiarity with elementary probability theory. Please contact the instructors if you have questions regarding your preparation. There will be about ten homeworks and both a midterm and a final exam (during exam period). Homeworks will include Matlab programming assignments. Grading will be based approximately 1/3 on the homeworks, 1/3 on the midterm and 1/3 on the final. Undergraduates and graduates are graded separately; in addition, assignments may differ.

Text:

R. Gonzalez and R. Woods, Digital Image Processing, Prentice Hall (Book Website)

(On reserve in the Engineering Library.)

Additional readings to be distributed during class.

Course Objectives:

Having successfully taken this course, you will be able to

Course Outline (dates/topics approximate), Fall 2007

Introduction (Read Gonzalez Ch. 1)
Sep 5 ls Intro/Organization
Fundamentals (Read Gonzalez Ch. 2)
Sep 10 ls Basics / Digitization
Enhancement (Read Gonzalez Ch. 3)
Sep 12 ls Gray scale enhancement
Sep 17 ls Spatial Filtering
Sep 19 ls Spatial Filtering
Sep 24 ls Mathematical Morphology (Gonzalez Ch. 9.1-9.3)
Enhancement (Read Gonzalez Ch. 4)
Sep 26 jd Enhancement in the frequency domain
Oct 1 jd Enhancement in the frequency domain
Oct 3 jd Enhancement in the frequency domain
Compression (Read Gonzalez Ch. 8)
Oct 8 jd Compression
Oct 10 jd Compression
Rigid and Nonrigid Registration (Read handout)
Oct 15 ls Registration: Introduction and Transformations
Oct 17 ls Registration: Match Metrics
Oct 22 Midterm Exam
Oct 24 ls Registration: Match Metrics
Oct 29 ls Registration: Optimization and Interpolation
Oct 31 ls Registration: Robust
Motion (Read handout)
Nov 5 jd Motion
Nov 7 jd Motion
Segmentation (Read Gonzalez Ch. 10 and handout)
Nov 12 jd Segmentation
Nov 14 jd Segmentation
Nov 19 Thanksgiving Break
Nov 21 Thanksgiving Break
Nov 26 jd Segmentation
Nov 28 jd Segmentation
Dec 3 ls Diffusion Weighted Image Analysis
Dec 5 Review
Reading Period
Dec 15 Final Exam, 2:00 p.m. Becton 102

Image Processing Links:

Gonzalez and Woods: Digital Image Processing
Image Database
Image Processing Tutorials

Image Processing Fundamentals by Young Gerbrands and van Vliet
Tutorials on Image Analysis, Computer Vision
Image Processing (wikipedia)
Image Processing Tutorial
A-Z of Image Processing Concepts
efg 's Image Processing Page
Discrete Fourier Theory (1D)

Introduction to Image Processing with Matlab
Matlab Tutorials
Mathworks

Introduction to Image Compression
Image Compression

Image Motion Analysis Bibliography

Deformable Image Segmentation

Image Registration
Image Registration Bibliography

HIPR2: Image Processing Learning Resources with JAVA
Image Analysis, Processing 3-D Reconstuction Resources
Pilot European Image Proc. Archive
Harry Nyquist, Yale Ph.D. 1917.

The Graphics File Format Page

Watermarking and Data Hiding
Watermarking, steganography, information hiding
StirMark:Watermarking Robustness Test

Morphing
Vector Quantization
Amara's Wavelet Page
Principles of Computerized Tomographic Imaging

Computer Vision Home Page
Computer Vision On-line Bibliography
Pattern Recognition


6 Sep 2007