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sct-pipeline / contrast-agnostic-softseg-spinalcord

Contrast-agnostic spinal cord segmentation project with softseg
MIT License
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Try with much smaller patch sizes (based on nnunet recommended size @ebadrian ?). #55

Closed louisfb01 closed 11 months ago

louisfb01 commented 1 year ago

Run nnUnet on the uncropped dataset to have ideal patch size.

naga-karthik commented 11 months ago

Update: patch-size from nnunet was not ideal, hence we stuck the patch/crop sizes from ivadomed and proceeded from there. The final center-cropping size is fixed to 64 x 192 x 320 to accommodate for larger SC diameter (on R-L) and larger spinal curvature (on A-P). 320 is the max size out of all the images in the training set (no cropping was done on S-I) direction.