Added template framework for applying transforms to distance maps#10
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andy-s-ding wants to merge 1 commit intoMIC-DKFZ:masterfrom
Open
Added template framework for applying transforms to distance maps#10andy-s-ding wants to merge 1 commit intoMIC-DKFZ:masterfrom
andy-s-ding wants to merge 1 commit intoMIC-DKFZ:masterfrom
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nnUNet currently does not have a framework for loading in distance maps that were calculated offline, though I have a version of nnUNet with a modified dataloader that can do this. For full functionality, distance maps should also be cropped and transformed in a similar fashion to the image and segmentation data. The easiest way to do this is to add another key in the data dictionary called 'dist_map'. If the data has this key, then a transform can call _apply_to_dist_map. Modifying the BasicTransform class is the simplest way to add this functionality to other transforms.
Member
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Distance maps should be treated as regression targets. Or am I missing something here? |
Author
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Ah, I didn't realize that they could be treated that way. I didn't see anything in the code base that used regression targets, so I made my own data dictionary key for it. |
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nnUNet currently does not have a framework for loading in distance maps that were calculated offline, though I have a version of nnUNet with a modified dataloader that can do this. For full functionality, distance maps should also be cropped and transformed in a similar fashion to the image and segmentation data. The easiest way to do this is to add another key in the data dictionary called 'dist_map'. If the data has this key, then a transform can call _apply_to_dist_map. Modifying the BasicTransform class is the simplest way to add this functionality to other transforms.