3D coordinate of input 3D matrix

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1

Hi, I have some problems of 3D coordinates and segmentation.

  1. what’s the coordinate relationship between 3D slicer and my volume coordinate? When I load my 3D matrix( 512512512 object) in the software, how can i set the coordinate with my volume coordinate?
  2. for the 3D volume(512512512), it is a binary volume. The values on the object that can be seen are 1, and i want to ask how to do segment? can it be segment automatically or semi-automatically? after segmentation, how can i set the coordinate at the center of intersection betweent to the two segment parts?
    volume
    volume559×524 42.6 KB
2

Please read
https://slicer.readthedocs.io/en/latest/user_guide/coordinate_systems.html

3

Thank you so much. What about the second question?" for the 3D volume(512512 512), it is a binary volume. The values on the object that can be seen are 1, and i want to ask how to do segment? can it be segment automatically or semi-automatically?"

4

In short, you can segment a binary image if you like with the segment editor.

Segmentation is to define specific regions in intensity images with continuous grayscale as binary images. I am not sure what you want to do by segmenting it (because the screenshot above already shows something segmented).

You will find most tools not working very well for an image that consists only 0 and 1. But if your goal is to use something like scissors, or some morphological operations, you can do those.

5

Thank you so much. It is a segmented image shown above. I want to go on conducting with aneurysm segmentation, so I need to segmented based on it.

6

If you want to split that whole thing into two segments as shown in schematic, you can easily achieve that using the scissors tool.