Create 3-D Image Stack and Conversion Tool

[awhite40]

Remove extra space that does not correspond to sample from the images. See post on Micro-CT of fiber composites.

[glahoti6]

Original and cropped version of a sample image. Done in Matlab. I didn't re-orient the original image. I simply cropped it.

[glahoti6]

This time with contrast.

[tonyfast]

What is the advantage to cropping these images?

[glahoti6]

Alicia and me thought that we don't need those extra boundary. We guess, square in the middle is of our interest.

[tonyfast]

These images are 2-D slices in stack; the 3-D image is the image y'all should be performing these operations on. This data took time to generate and we would like to use as much as possible. With that would should crop the images so we maintain as much of the image data as possible. Experimental data is non-reproducible and needs to be leveraged as a effectively as possible.

I would suggest this workflow.

• Stack the images into a 3-D image
• Rotate the 3-D image so that its edges are orthogonal to the picture axis.
• Crop the 3-D image instead.

[glahoti6]

Various Visualizations for DICOM Images

3D Visualization of a single layer (first DICOM image)

3D Visualization of a single layer's (first DICOM image's) middle portion

2D Visualization of a single layer (third DICOM image)

3D Visualization of 5 layers' (first five DICOM images') shortened middle portion

3D Visualization of 5 layers' (first five DICOM images') elongated middle portion

Cross=sectional Views

[tonyfast]

Looks awesome. I am looking forward to hearing more about this today.

What tools did you use for the visualization?

[glahoti6]

We did it in Matlab. We will share the codes.

[awhite40]

Since we have 3D datasets and the codes to create them now I am going to close this.