BRATS
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BRATS
Implement working 3D Unet architecture. One of my concerns is that volumes might have different number of slices. The network should deal with that.
I suggest new branches would follow convention issue#X
, otherwise in a moment we would have large amount of branches with similar names
What are your comments?
Because of the fact that we are now working with 3D data, we need to check whether DICE and boundary losses could and should be calculated differently for volumes.
As the image downscales x2 with each step along each dimension, it is impossible for it to deal with images that are uneven in any dimension. In decathlon dataset (and brats as well), the number of slices is 155.
How to deal with this problem? Add empty slice/copy 1 slice?
Please, comment @jnalepa
Data, modalities order, statistics for each modality etc
Write preprocessing code to structure, normalize and generate ready-to-feed data. One should keep in mind that it will be later needed to preprocessed Brats 2020(?) dataset. Also, final format of the data should be picked.
Implemented loss which uses DICE and Cross Entropy loss with conjunction.
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