Creating and Exporting 2D Bounding Boxes for Each Slice for Deep Learning Training

Support
1

Hi,

I am working on annotating medical images (CT & MRI) using 3D Slicer, and I have the following use case:

I need to:

  1. Annotate specific regions of interest by creating 2D bounding boxes on each slice individually.
  2. Extract the 2D coordinates (X, Y) of the 4 corners of each bounding box for future use in training a deep learning model.

Could you please clarify:

  • Is it possible to create 2D bounding boxes per slice in 3D Slicer?
  • How can I extract the 2D coordinates of each bounding box?
  • In what format can these annotations be exported (e.g., JSON, CSV, etc.) to facilitate their use in deep learning pipelines?

Thank you

2

Yes, that should be quite easy if you are willing to do some python scripting. Otherwise not really.