Medical Physics/BME 573 - Image Science (Fall 2009)  

Instructor:  James E. Holden, Ph.D.
Main Office: L1005 WIMR
Holden office:  B1137 WIMR
Holden Phone:   608/262-5998
Holden Email:   jeholden@wisc.edu
Syllabus nuts and bolts

    




                                 Lecture Outline

 



Sept 2, 2009

Course overview. Introduction to mathematical image science.


Sept 4, 2009

Math background: The complex plane, odd/even functions, The Dirac delta function.





  Sept 7, 2009  Labor Day holiday

Sept 9, 2009

Introduction to linear systems.


Sept 11, 2009

Fourier's theorem:  Fourier series and the continuous Fourier transform.





Sept 14, 2009

Properties of the Fourier transform.


Sept 16, 2009

Gaussian, sinc, rect, sinusoid, and comb functions  Essential Fourier transform pairs.


Sept 18, 2009

The complex transfer function.    [attached figure]





Sept 21, 2009

The convolution principle.


Sept 23, 2009

The sampling theorem.   


Sept 25, 2009

Sampling and restoration.




Sept 28, 2009

Apodizing and aliasing.    


Sept 30, 2009

The Discrete Fourier Transform (DFT).    


Oct 2, 2009

The Discrete Fourier Transform (DFT) (cont.)   [attached  material]    





Oct 5, 2009

The edge response function; edge enhancement.    [attached figures]   


Oct 7, 2009

Approximate restoration from sampling (pixels)   [attached figures]

Oct 9, 2009

 Clean up loose ends and review.




Oct 12, 2009

First test.Approximate restoration from sampling (pixels)  [attached figures]

Oct 14, 2009

Distributions and their moments: Expectation, mean and variance.


Oct 16, 2009

The binomial, Poisson, and Gaussian  distributions. Other distributions.





Oct 19, 2009

Fourier relationships – the characteristic function. The central limit theorem.


Oct 21, 2009

Introduction to elementary decision theory.  Signal to noise ratio. The Rose  model.


Oct 23, 2009

Joint and conditional probabilities; Bayes' theorem.





Oct 26, 2009

Receiver Operating Characteristics (ROC).


Oct 28, 2009

Receiver Operating Characteristics (ROC). (cont.)


Oct 30, 2009

Principles of noise averaging:  the covariance concept. Stationary noise. The autocovariance function.





Nov 2, 2009

Simulated 1D normally distributed stationary noise; demonstration of  autocovariance and power spectrum. [noise graphs 1]  [ng2]


Nov 4, 2009

Simulated 1D normally distributed stationary noise (cont.) Effects of  smoothing  on the  autocovariance  function.


  Nov 6, 2009   Apparent effects of noise spatial frequency composition; the power spectrum.   [noise images]




Nov 9, 2009

The propagation of error.  The covariance matrix.


 Nov 11, 2009   Maximum likelihood.  Linear regression.  The correlation coefficient.

Nov 13, 2009

Clean up loose ends and review





Nov 16, 2009

Bivariate linear regression. The eigenstructure of the covariance matrix.

Nov 18, 2009

Optimization.  The Levenberg - Marquardt approach.

Nov 20, 2009

Finish optimization section.




Nov 23, 2009

The 2D Fourier transform and the Central Slice Theorem

 Nov 25, 2009  Imaging from projections:  The sinogram.     [projection picture] 

Nov 27, 2009

Thanksgiving break. 




Nov 30, 2009

Analytic reconstruction methods.

Dec 2, 2009

Consequences of discretization: sampling considerations in imaging from projections.    ISMRM poster 


Dec 4, 2009

Pixel transformations:  Part I: the 2D affine transformation. Part II: The anti-aliasing affine transformations.




Dec 7, 2009

Mutual information.    Pre-2004 image registration lecture.

Dec 9, 2009

Expectation - maximization. 

Dec 11, 2009

OSEM Image reconstruction.




Dec 14, 2009

The analysis of variance.




Homeworks:




Homework 1
Homework 1: Answers


Homework 2    attached figure
Homework 2: Answers


Homework 3
Homework 3: Answers

Homework 4    attached material Homework 4: Answers

Homework 5   attached figure
Homework 5: Answers


Homework 6
Homework 6: Answers


 


Exams:


Test 1
Test 1: Answers   


Test 2  
Test 2: Answers


Takehome exam   attachment
Takehome exam: Answers  











Updated October 12, 2009