CSE 554
From Geometry To Biomedicine
(Research in Ju lab)
Fall 2013
Bio-Medical Image Analysis
Image
Geometric
Forms
Knowledge
(CT,MRI,EM,etc.)
1
Domain Problems
Identifying 3D protein
structures from density
volumes
Mapping gene expression
patterns in
CSE 554
Lecture 5: Contouring (faster)
Fall 2013
CSE554
Contouring II
Slide 1
Review
Iso-contours
Points where a function evaluates to a
same value (iso-value)
Smooth thresholded boundaries
Contouring methods
Primal methods
Marching Squares (2D) and
CSE 554
Lecture 4: Contouring
Fall 2013
CSE554
Contouring
Slide 1
Review
Binary pictures
Pros: natural geometric form for
bio-medical data; simple to
operate on
Cons: blocky boundary; costly
to store or visualize (particularly
in 3D).
CSE554
Contouring
CSE 554
Lecture 1: Binary Pictures
Fall 2013
CSE554
Binary Pictures
Slide 1
Geometric Forms
Curves
Surfaces
Continuous forms
Defined by mathematical functions
E.g.: parabolas, splines, subdivision
y x2
surfaces
z Sin[ x ]Sin[ y ]
Discrete forms
Disjo