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adalca / medical-datasets

tracking medical datasets, with a focus on medical imaging
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atlas about Neurite OASIS Sample Data #11

Closed DopamineLcy closed 3 years ago

DopamineLcy commented 3 years ago

Thank you for your remarkable "VoxelMorph" series work! I'd like to use Neurite OASIS Sample Data to do registration research, but how can I get atlas and corresponding segmentation of this dataset.

Best wishes.

DopamineLcy commented 3 years ago

Or is it reasonable to use the "atlas.npz" file in voxelmorph repository directly?

adalca commented 3 years ago

@DopamineLcy thanks for your comments! Yes, atlas.npz in voxelmorph will work with that aligned_*.nii.gz files:

image

DopamineLcy commented 3 years ago

@adalca Thank you for your reply, which helps a lot! Maybe I need more data for the research, only this dataset may be not enough. But I found that doing segmentation with softwares like FreeSurfer is very time-consuming. Is there any dataset preprocessed and segmented like this one? Or is there any method to preprocess the data such as ABIDE or ADNI to be like this dataset rapidly. Thanks you.

adalca commented 3 years ago

@DopamineLcy I'm not aware of other large datasets that are this well processed, except maybe(?) mindboggle-101, although I haven't used it myself. We hope to release a DL processing tool to go from arbitrary image to this quality of segmentation.

DopamineLcy commented 3 years ago

@adalca Thank you very much!