Assignment 2
Due Tonight !
We are ready!
Everyone will present 2 papers this semester
You will work in a group of 3!
2 papers per Journal Club
Sign-up now!
Images are 2D Arrays!
Mahotas vs. OpenCV
How to segment the tumor?
Binary segmentation mask
Segmentation
means dividing up an image into different structures
foreground vs. background
Label Map
each identified structure has a unique ID
Datatype?
Comparison of Segmentation Techniques
Automatic Segmentation is a hard problem!
so much variability across subjects!
Semi-Automatic Segmentation
user places seeds
Manual Segmentation or Expert Segmentation is the "Groundtruth"
extremely time-consuming
2 Experts worked on this for 6 months
Atlas-based Segmentation
Registration / Alignment
Registration
mapping one subject to a standard space
mapping one image modality to a standard space
once in standard space, we can apply knowledge or compare
Images are 2D Arrays!
2D Image Modalities
Ultrasound
X-Ray
What about CT, MRI, EM?
Image Volumes
Fetal MRI
2D
3D
Marching Cubes creates 3D Meshes
Bill Lorensen 1987
Label Maps
R.I.P.
Slice-based Volume Rendering
Volume Rendering with Ray Casting
Volume Rendering with Ray Casting
Cinematic Volume Rendering
DICOM
Study
Patient
Series
2D Images
Picture archiving and communication system (PACS)
From DICOM...
...to .NRRD, .NIFTI, and others!
ton of converters available
