Data resampling

The provided nnU-Net format data are resampled to a unified spacing. Can I ask a few questions regarding this:

1. Will the original PSMA data without resampling be available?
2. During evaluation, will we use the original or the resampled nnU-Net format images?

Thanks in advance for your assistance.

Thank you for your question.

1) The provided data has NOT been resampled to a unified spacing. We apologize for any ambiguity in the text description. The CT data has been resampled to match the PET resolution. If you wish to proceed with the nnUNet pipeline, you will need to run the nnunet preprocess an plan functions.

2) During evaluation, you will receive files with different spacings. This requires you to resample input files to your preferred resolution and output files back to the original one.

Cheers, AutoPET III Team

Ah, I see, I have misunderstood the description. Indeed, only CT images are resampled to match the corresponding PET. Thank you for your clarification!

Since CT data has been resampled to match the PET spacing. Is the segmentation done based on the PET spacing?

I'm asking this question to see if you guys resample the segmentation, too. I believe that downsampling the segmentation may lead to the removal of small tumors due to interpolation, which may lead to reduced model performance.

Thanks for the question! The segmentation is based on the PET volume.

Best Jakob