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neuronflow / BraTS-Toolkit

Code to preprocess, segment, and fuse glioma MRI scans based on the BraTS Toolkit manuscript.
https://www.frontiersin.org/articles/10.3389/fnins.2020.00125/full
GNU Affero General Public License v3.0
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Ability to run BTK without resampling #32

Closed DanielaTalba1 closed 12 months ago

DanielaTalba1 commented 12 months ago

@neuronflow Please, I was able to get the BTK to work, thanks to this tool. However, I finally realized that I have very well resolved images (0.5mm3), so I have a high level of detail. Since I want to use my MRI images for radiomics studies (after preprocessing with BTK), i.e. texture studies, which are quite grainy, I need to keep my infra-millimeter resolution, so is it possible please to perform all BTK operations on my images without resampling? In other words, I just want BTK to perform coregistration and skull stripping on my MRI images, but leave their resolution untouched. Is this possible, please?

Thank you for your reply

Daniela

neuronflow commented 12 months ago

That is not within the scope of BTK. But what keeps you from running the radiomics stuff on the full-resolution data?

BTK outputs skull-stripped images in atlas and in native space: image

However, we have a package under development that could probably help to achieve what you want (not ready yet): https://github.com/BrainLesion/preprocessing

We can have a call once I return from MICCAI and discuss if you want to.