NEUBIAS / training-resources

Resources for teaching/preparing to teach bioimage analysis
https://neubias.github.io/training-resources
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Volume rendering, volume slicing, spatial calibration #696

Open tischi opened 5 days ago

tischi commented 5 days ago

Hi @manerotoni, @maulakhan

I am working on the material, we have the following modules:

I am not sure what the best teaching order would be. The issue is that I think to demonstrate 3-D anisotropic calibration one needs volume rendering and volume slicing within the "spatial calibration" module. One could only show isotropic images in the volume rendering, but that feels wrong, and having anisotropic images for the volume slicing is critical, as this is the whole point.

Any ideas?

tischi commented 3 days ago

Adding to the confusion, already in digital image basics we are looking at a 3-D image, uncalibrated though, so the anisotropy is not yet an issue, but some minimal "volume slicing" abilities need to be taught there. However, doing this there is a strong "risk" that a teacher will show and explain many more things about 3-D image visualisation, including 3-D rendering; just happened in a course 😅 . Maybe we should remove the activity where we inspect a 3-D image from the digital image basics and move this to a dedicated volumetric image inspection module? Then I am not sure how to combine this with the volume slicing and rendering modules 🤯 .

I know, these are though questions and I don't think that it is possible to find clean solutions, but we should at least for our standard courses decide on some sequence of modules and activities that more or less make sense and prevent inexperience teachers from teaching "too much" in one of the modules.