COMP5424 - IT in Biomedicine Lab - IT Assignment Help

Assignment Task

MIC Module Development

Summary Information
• This assignment is worth 20% of your final assessment.

• The mark of "COMP5424 Assignment: Medical Image Computing Module Development" will be given depends on the file submitted on Canvas:

– Canvas Submission [Due Date] 23:59 Sunday of Week 12 (2021-05-30).

• Submission Deliverables
– You are requested to create a zip file of all deliverables, including the source code, the outputted images, and the appendix report. Your assignment will only be marked if all deliverables can be accessed from the Canvas System, and the solution code is runnable from a Slicer with version 4.10.2.
– Your copy should include an Assignment Coversheet, which can be downloaded from HERE.

Skeleton Code and Sample Data
Skeleton code and sample data can be downloaded from the assignment page on Canvas. It is very important for you to download Skeleton Code first. The connection setup between Python and 3D slicer has been completed within the Skeleton Code already for your convenience. Within the Skeleton Code, there exist some empty blocks marked with comments (between #Add your code below# and #Add your code above#), where you should fill in with your assignment solution code.
Note: you should not modify any other completed parts of the Skeleton Code.

Introduction
Medical image computing (MIC) is an interdisciplinary field at the intersection of computer science, information engineering, electrical engineering, physics, mathematics and medicine. This field develops computational and mathematical methods for solving problems pertaining to medical images and their use for biomedical research and clinical care. Within the MIC domain, there are three essential medial image analysis techniques, namely, medical image enhancement (MIE), medical image segmentation (MIS) and medical image registration (MIR). The fundamental ideas and practices, regarding MIE, MIS and MIR, have been delivered and deployed in this unit of study, from week 5 to week 7.

Assignment: Medical Image Computing Module Development
In this assignment, you will build a fundamental MIC platform to perform three individual tasks on the sample data provided and observe the effects achieved by MIE, MIS and MIR respectively. To complete this assignment, you are expected to use 3D slicer with the programming skills learnt from this course, based on the skeleton code and sample data provided on Canvas.
For programming related tasks (Task A and Task B), you are suggested to remove all irrelevant module loading paths before you start to do these tasks. Additionally, please wait for your code to be processed, your Slice interface may be freezed as it may take some time to run your MIE and MIS code completely.

Task A: Medical Image Enhancement (MIE)

R Key Information:
• Sample Data: Task A / MRHead.nrrd
• Skeleton Code: Task A / MedicalImageEnhancement.py
• Coding Deliverable: Completed solution code (MedicalImageEnhancement.py)

• Report Deliverable: Corresponding section in the appendix report, including the demonstration of the results of 3D convolution performed with the (1) smoothing, (2) sharpening and (3) edge detection filters.

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