Thank you for support.
I have some problems with my image.
I execute the command sct_propseg t1.nii.gz -c t1, but then the output image is incorrect, (attached)
please guide me on how to fix it.
I really appreciate any help you can provide.
Thank you for reaching out. Few comments:
- The image you are trying to segment has relatively poor resolution in the right-left direction, hence it will be difficult to obtain a reliable and precise segmentation
- The cord/CSF contrast seems fairly low, hence the initialization of the algorithm failed. Providing a few manual labels could help. See tutorials
- There is another function than PropSeg to segment the cord, which could work better for you. It is called
sct_deepseg_sc. - If you send us a representative image, we could help you figure out the best parameter for your data.
Best
Julien