Hello! Thank you for your response!
So I have my data as both DICOM and Analyze right now. But I am using a MATLAB script to convert Analyze to .jpg that I use for the UNET (This is so wasteful, sorry pretty new to this). Picking up data directly through DICOM/Analyze would be very helpful now and in the future for sure. I have a folder for each patient with all the DICOM images in it.
Currently I am testing with a few patients (10) and only a certain part of the brain to see whether I can make network work properly. This is like 120 images for each modality. I would say this very small data is not too imbalanced and I have like 10 extra MRI images compared to CT.
If this network works properly then I can use my bigger data.
Thanks for your help