Modules:ABC-Documentation-3.5

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Gallery of New Features

Atlas Based Classification

Atlas Based Classification

Interface in Slicer 3

3D visualization of the result

General Information

Module Type & Category

Type: CLI

Category: Segmentation

Authors, Collaborators & Contact

• Marcel Prastawa, Utah
• Guido Gerig, Utah
• Contact: Marcel Prastawa, prastawa@sci.utah.edu

Module Description

ABC (Atlas Based Classification) is a full segmentation pipeline developed and used at University of North Carolina and University of Utah for healthy brain MRIs. The processing pipeline includes image registration, filtering, and inhomogeneity correction.

Usage

Examples, Use Cases & Tutorials

• Note use cases for which this module is especially appropriate, and/or link to examples.
• Link to examples of the module's use
• Link to any existing tutorials

Quick Tour of Features and Use

List all the panels in your interface, their features, what they mean, and how to use them. For instance:

• Input Panel

Input images. First image in the list is the reference image space. All other images are registered to first image.

Input panel

• Atlas Panel

Atlas information. Atlas directory contains the template file (template.mha), and the prior probabilities (1.mha, ..., 999.mha) Orientation: RAI, ASR, LPS, etc Prior weight adjustments: space separated numbers, must be the same number as number of priors.

Atlas information panel

• Output Panel

Specify where to store output files (optional). Segmentation label image, and bias corrected image.

Output panel

Advanced panel

Development

Dependencies

None

Known bugs

Follow this link to the bug tracker at NITRC.

Source code & documentation

Available at [1]